I did not get that bug, however, you should make your configures more simple.
- This file get execute first when map load
- This is Valve's game mode settings. game_type 0; game_mode 1
- You not edit this file
, SteamCMD will overwrite this file when update.
- Game mode files get executed after server.cfg, overriding some settings what have changed before.
- You want override Valve's game mode settings, you create this file and use it.
- This file get executed after game mode config.
- (You can use this file as server.cfg, if you not change game modes.)
And to avoid trouble and confusion, remove all these commands:
...except ban files.