metal/chicken_wire001.vtf - common seethrough gate texture used on a lot of maps to block areas off. right now completely transparent, despite the wire giving good feedback that its impassable
metal/metalgrate013a.vtf - completely transparent despite not being able to shoot through them. is used on cp_steel as the gate texture on the windows and doors outside blu spawn near point a
glass/* - most completely transparent, does not clearly inform the player that they cannot shoot or move through
metal/metalgrate011b.vtf - havent actually found anything so haven't tried removing it. just mentioning it as the only metalgrate texture that isn't apparently causing a problem. if something is going wrong id bet it would be this hahaha this ones actually used for koth_nucleus, used as the floor for the healthpack under the point. completely transparent
metal/metalgrate011a.vtf - opposite problem, is completely opaque when it should be transparent. biggest offender on 2fort, where you wont be able to see anyone on the grated dropdown area right inside the fortress entrances
The best solution I could think of is to have an alternate vpk that leaves these textures unflattened, or if agreed as much a problem as I think they are for readability not touched at all.
If anyone else sees something wrong, using mat_crosshair on an sv_cheats 1 server you can see the texture name of any nonprop you are looking at which is great for diagnosing problems. Note this wont work for transparent things if you are noclipping? And I had to isolate metalgrate013a with trial and error, mat_crosshair wasn't working on that at all. If anyone else notices something feel free to add to this post with a comment of which texture is messed up. I will play with this for awhile and see if I notice anything else, hope it helps