and the numbered key:

1.  Prime (regular Ultraverse)
2.  Thor (Reality-32569 - a merged Marvel/Ultraverse)
3.  Ash (Event Comics)
5.  The Mighty Magnor from Mighty Magnor
6   Polychroem from Nocturnals
7.  Thor (Reality-616)
8   Adastra from Barry Windsor-Smith's Young Gods
9   Prototype   (regular Ultraverse)
10  Gladiator from Crimson Plague
11  Radiant from I-Bots
12  Black Widow
13. Firelion of the Nocturnals
14  Starfish of the Nocturnals
15.  Topaz   (regular Ultraverse)
16   Itazura from I-Bots
17   Prototype (Reality-32569 - a merged Marvel/Ultraverse)
19   Gunwitch of the Nocturnals
20   Stonewall from I-Bots
21   Heros (Bron?) from Barry Windsor-Smith's Young Gods
22.  Rick Flagg from American Flagg
23   Iron Man
24   Edge from Edge
25   Topaz (Reality-32569 - a merged Marvel/Ultraverse)
26.  Omega - indicia indicates owned by Marvel, but not any recognizable version, and unusual to have been specifically identified in the indicia when other Marvel-owned characters were not.
27   Sandy from Dragon Lines
28   Digitina from Cyberella
29   Komodo of the Nocturnals
31   Killaine from I-Bots
32   Monkey King from Dragon Lines
33   Starfox
34.  Doc Horror from the Nocturnals
35   Strangehands from Barry Windsor-Smith's Young Gods
36.  Giant Man
37   White (Whitney Samsung) from Black and White
38   Black (Reed Blackett) from Black and White
39   Juantia "J.J." Sachs from Sachs and Violens
40.  Captain America
41   A-X from Man Called A-X
42.  Contrary   (regular Ultraverse)
43   Sersi
44   Black Knight (of Reality-32569 - a merged Marvel/Ultraverse. This is that reality's equivalent of the Ultraverse's Firearm)
45   Shannon Lower from Crimson Plague
46.  Hardcase   (regular Ultraverse)
47   Deuce (Storyworks Inc - seems to have only appeared here and on a trading card - planned comic never materialized)
48.  Crystal
49   Pigsy from Dragon Lines
50.  Vision
51.  DiNA from Crimson Plague
52   Ray Stoner from ‘Breed
53.  Axus from Freebooters
55.  Groo from Groo
54   Aran Ana-Kashan from Freebooters
56.  Siren   (regular Ultraverse)
57   Psy-4 from I-Bots
58   Ernie "Violens" Schultz from Sachs and Violens
59.  Ghoul   (regular Ultraverse)
60.  Quicksilver  (of Reality-32569 - a merged Marvel/Ultraverse)
61.  Halloween Girl from the Nocturnals
63   Black Widow (of Reality-32569 - a merged Marvel/Ultraverse. This is that reality's version of Wasp)
 And with the identified ones removed.