Numbers are from a Petscan search for articles in a certain category (search depth=6) with {{Taxobox}}; category name noted if it isn't the scientific name. Example search for echinoderms.
Semi-done notes categories with a small number (typically <15) of remaining manual taxoboxes, and where I've examined every taxobox article and decided not to convert it to an automatic taxobox at present. I leave manual taxoboxes in place when I notice some issue with the taxonomy (most frequently, the issue involves synonymy).
notes categories where I haven't made a concerted effort to convert manual taxoboxes to automatic. Most articles in categories should be converted to automatic taxoboxes, although a few may have other issues that should be addressed. In some cases Wikipedia's higher taxonomy is inconsistent and should be overhauled and standardized to a recent source as part of the process of converting manual taxoboxes (nematodes and crustaceans are cases where the higher taxonomy is a bit of a mess)
I update these numbers from time to time. I'm not currently rechecking categories marked 
Done, although it is possible that new articles with a manual taxobox could be created in otherwise completed categories.
Last full update: 14 June 2024 (notes on breakdowns of individual articles (i.e., number of fossil taxa) not necessarily current)
Animal phyla
edit
Done Acanthocephala (Category:Acanthocephalans)- Done Agmata
Annelida (Category:Annelids) 50 remaining- Brachiopoda (Category:Brachiopods) 82 remaining
- Bryozoa (Category:Bryozoans) 38 remaining
Semi-done Chaetognatha 2 remaining (all incertae sedis, possible chaetognaths)- Chordata
- Done Cephalochordata
- Semi-done Tunicata (Category:Tunicates) 2 remaining (per WoRMS: Chorizocormus a synonym with species assigned to Polyzoa and Chorizocarpa, Diandrocarpa accepted with no accepted species)
- Vertebrata
- Semi-done Cnidaria (Category:Cnidarians, exclude Coral reefs and Coral diseases) 22 remaining
- Done Ctenophora (Category:Ctenophores)
- Done Cycliophora
- Done Dicyemida
- Echinodermata (Category:Echinoderms) 179 remaining
- Done Entoprocta
- Done Gastrotricha
- Done Gnathostomulida
- Hemichordata (Category:Hemichordates) 77 remaining
- Done Hyolitha
- Done Kinorhyncha
- Done Loricifera
- Mollusca
- Done Aplacophora (Category:Aplacophorans)
- Bivalvia see project (28 in Category:Bivalves)
- Cephalopoda see project (560 in category (checked A-L (and M-Z? I forget))
- Gastropoda see project (4577 in category)
- Done Monoplacophora
- Polyplacophora (Category:Chitons) 21 remaining
- Done Rostroconchia
- Done Scaphopoda (Category:Scaphopods)
- Done Monoblastozoa
- Nematoda (Category:Nematodes) 57 remaining
- Semi-done Nematomorpha 1 remaining (fossil, possible nematomorph)
- Done Nemertea (Category:Nemerteans)
- Done Onychophora (Category:Onychophorans)
- Done Orthonectida
- Done Phoronida (Category:Phoronids)
- Done Placozoa
- Platyhelminthes 101 remaining
- Semi-done Porifera (Category:Sponges) 4 remaining (all fossil)
- Semi-done Priapulida 1 remaining (Paraselkirkia, fossil, but other taxa listed at Archaeopriapulida aren't necessarily following the classification there)
- Semi-done Proarticulata 7 remaining (all fossil; 8 genera/species at least incertae sedis to order if not other ranks. Cephalozoa is a class, but hardly any taxonbar links)
- Semi-done Rotifera (Category:Rotifers) 2 remaining (Callidina elegans and Callidina; genus is tax. inq. on WoRMS, species has hardly any taxonbar links)
- Semi-done Sipuncula (Category:Sipunculans) 2 remaining
- Semi-done Tardigrada (Category:Tardigrades) 3 remaining
- Done Trilobozoa
- Done Xenacoelomorpha
Arthropods
edit- Artiopoda 744 remaining
- Chelicerata (Category:Chelicerates) 898 remaining
- Crustacea (Category:Crustaceans) 742 remaining
- Hexapoda
- Semi-done Collembola 8 remaining
- Diplura 55 remaining
- Insecta see project
- Protura 20 remaining
- Myriapoda (Category:Myriapods) 214 remaining
Insects
edit- Done Archaeognatha
- Blattodea 8 remaining
- Coleoptera see project (19,168 in category Category:Beetles (depth 8))
- Semi-done Dermaptera (Category:Earwigs) 3 remaining (2 synonyms (Euborellia ambigua Euborellia pallipes), 1 fossil Forficula paleocaenica)
- Diptera see project (1563 in category Category:Flies (depth 8))
- Done Embioptera
- Semi-done Ephemeroptera (Category:Mayflies) 4 remaining (all fossil, 2 stem group)
- Hemiptera 596 remaining
- Hymenoptera 425 remaining
- Lepidoptera see project (15,377 in category (depth 8))
- Done Mantodea
- Done Mecoptera
- Done Megaloptera
- Semi-done Neuroptera 4 remaining (3 fossils and a dubious extant tribe)
- Semi-done Notoptera 2 remaining (fossils in Grylloblattodea that make it not monotypic)
- Odonata 76 remaining
- Orthoptera 13 remaining
- Semi-done Phasmatodea 1 remaining (1 obsolete suborder, Pink-winged phasma species with non-monotypic genus redirecting there)
- Done Phthiraptera (Category:Lice)
- Done Plecoptera
- Semi-done Psocodea 3 remaining
- Semi-done Psocoptera 3 remaining (category shouldn't exist; all Psocodea now)
- Done Raphidioptera
- Semi-done Siphonaptera (Category:Fleas) 5 remaining
- Done Strepsiptera
- Thysanoptera (Category:Thrips) 288 remaining
- Semi-done Trichoptera 5 remaining
- Done Zoraptera
- Done Zygentoma
Extant fish orders
editAgnatha;
- Done Category:Myxinidae
- Semi-done Category:Lampreys 3 remaining (all fossil)
Chimaeras;
- Semi-done Category:Chimaeriformes 3 remaining (all fossil)
Sharks;
- see WikiProject
Rays;
- Semi-done Category:Myliobatiformes 8 remaining (6 fossils not linked from higher taxa, 1 possible synonym, and 1 species in no longer monotypic genus)
- Semi-done Category:Rajiformes 13 remaining (all fossils either not linked from higher taxa, or incertae sedis, 1 synonym)
- Semi-done Category:Rhinopristiformes 3 remaining (all fossil, not linked from higher taxa)
- Done Category:Torpediniformes
Actinopterygii;
- Done Category:Acanthuriformes ( Done checked by Quetzal1964)
- Done Category:Acipenseriformes
- Done Category:Albuliformes
- Done Category:Alepocephaliformes
- Semi-done Category:Amiiformes 2 remaining (all fossil; Sinamiidae rank as family or subfamily not clear; Tomognathus incertae sedis)
- Semi-done Anguilliformes (Category:Eels) 3 remaining (1 fossil genus not linked from any higher taxon,
10 in Coloconger (family placement different in FotW5 than Wikipedia) - Semi-done Category:Argentiniformes 1 remaining (Parawenzichthys, fossil with unclear family placement)
- Done Category:Ateleopodiformes
- Done Category:Atheriniformes (Ovalentaria Done checked by Quetzal1964)
- Semi-done Category:Aulopiformes 11 remaining
- Done Category:Beloniformes (
Rhamphexocoetus, fossil, not mentioned at parent given by GBIF/Fossilworks) (Ovalentaria Done checked by Quetzal1964) - Semi-done Category:Beryciformes 1 remaining (monotypic genus at binomial)
- Done Category:Carangiformes ( Done checked by Quetzal1964)
- Done Category:Cetomimiformes
- Semi-done Category:Characiformes 1 remaining (Iguanodectinae status as subfamily or family uncertain)
- Done Category:Cichliformes (Ovalentaria Done checked by Quetzal1964)
- Semi-done Category:Clupeiformes 1 remaining (Araucanian herring)
- Semi-done Category:Cypriniformes 8 remaining ( Done checked by Quetzal1964)
- Done Category:Cyprinodontiformes (
Gambusia aestiputeus, synonym of Gambusia nicaraguensis) (Ovalentaria Done checked by Quetzal1964) - Done Category:Elopiformes
- Done Category:Esociformes
- Done Category:Gadiformes ( Done checked by Quetzal1964)
- Done Category:Galaxiiformes (Category:Galaxiidae) (
Galaxias effusus fossil not linked from higher taxon, Mountain galaxias (species complex), Aplochitonidae should be a subfamily) - Done Category:Gasterosteiformes
- Done Category:Gobiesociformes (Ovalentaria Done checked by Quetzal1964)
- Semi-done Category:Gobiiformes 6 remaining (6 not linked from higher taxon, 1 linked from 2 higher taxa) ( Done checked by Quetzal1964)
- Done Category:Gonorynchiformes
- Semi-done Category:Gymnotiformes 4 remaining (3 monotypic genera at binomial, 1 other living genus w/family article genus list needing update)
- Done Category:Hiodontiformes
- Semi-done Category:Holocentriformes (Category:Holocentridae) 1 remaining (Pristilepis oligolepis, monotypic genus)
- Done Category:Icosteiformes (Category:Icosteidae)
- Category:Istiophoriformes ( Done checked by Quetzal1964)
- Done Category:Kurtiformes ( Done checked by Quetzal1964)
- Semi-done Category:Lampriformes 1 remaining (monotypic genera at species title)
- Done Category:Lepidogalaxiiformes (in Category:Euteleostei)
- Done Category:Lepisosteiformes
- Done Category:Mugiliformes (Ovalentaria Done checked by Quetzal1964)
- Done Category:Myctophiformes
- Done Category:Notacanthiformes
- Done Category:Ophidiiformes ( Done checked by Quetzal1964)
- Semi-done Category:Osmeriformes 2 remaining (all fossils not linked from higher taxa)
- Done Category:Osteoglossiformes
- Semi-done Category:Ovalentaria 1 remaining (but not an order, most of the remaining caught in order searches) ( Done checked by Quetzal1964)
- Semi-done Category:Perciformes 8 remaining ( Done checked by Quetzal1964)
- Done Category:Percopsiformes
- Done Category:Pleuronectiformes ( Done checked by Quetzal1964)
- Done Category:Polymixiiformes (
Omosoma fossil, not placed to family in IRMNG or Fossilworks) - Done Category:Polypteriformes
- Semi-done Category:Salmoniformes 8 remaining (a mess with formas, populations, FB accepted species that are noted there to be synonyms on CoF, fossils, etc.)
- Semi-done Category:Scombriformes 1 remaining (Xiphiorhynchoides fossil) ( Done checked by Quetzal1964)
- Semi-done Category:Scorpaeniformes 1 remaining (Sorsogona accepted in Fishbase w/out type species) ( Done checked by Quetzal1964)
- Semi-done Category:Siluriformes 4 remaining (1 fossil, 2 monotypic genera at binomial, Otothyrinae not clear if subfamily or tribe)
- Done Category:Stephanoberyciformes (but order not recognized in latest edition of Nelson, category and placement of families need sorting)
- Category:Stiassnyiformes (not recognized in latest edition of Nelson)
- Semi-done Category:Stomiiformes 1 remaining (Bonapartia synonym; suborders not recognized in latest edition of Nelson)
- Done Category:Stylephoriformes (Category:Stylephoridae)
- Done Category:Synbranchiformes ( Done checked by Quetzal1964)
- Done Category:Syngnathiformes ( Done checked by Quetzal1964)
- Semi-done Category:Tetraodontiformes 1 remaining (Frigocanthus fossil unlinked from higher taxa)
- Semi-done Category:Trachichthyiformes 1 remaining, monotypic genus at binomial
- Semi-done Category:Zeiformes 1 remaining (Sorbinipercidae fossil)
- Anabantiformes ( Done checked by Quetzal1964)
- Batrachoidiformes ( Done checked by Quetzal1964)
Palaeontology
editPalaeontology 3234 (14 June 2024)
- Palaeontology+Arthropods 892
- Palaeontology+Cephalopods 557
- Palaeontology+Animals 547
- Palaeontology+Fishes 502
- Palaeontology+Amphibians and Reptiles 159
- Palaeontology+Microbiology 123
- Palaeontology+Mammals 113
- Palaeontology+Gastropods 110
- Palaeontology+Insects 76
- Palaeontology+Plants 49
- Palaeontology+Algae 30
- Palaeontology+Birds 18
- Palaeontology+Bivalves 14
- Palaeontology+Fungi 11
- Palaeontology+Dinosaurs 0
Sum of above 3201
Marine life
editMarine life 543 (14 June 2024)
- Marine life+Animals 362
- Marine life+Microbiology 142
- Marine life+Algae 19
- Marine life+Gastropods 11
- Marine life+Arthropods 7
- Marine life+Fishes 5
- Marine life+Bivalves 2
- Marine life+Cephalopods 1
- Marine life+Mammals 0
Sum of above 549
- Marine life+Palaeontology 249