permissions?

Did you install those games with wine or did you only copied those directories?

Keep in mind that most windows programs copy files into Windows and/or profile directories. Even in case you copied everything right, you'll be missing those registry entries.

They were installed with DosBox in Windows and then copied from there to Linux. As far as permissions go the files all have read access.

Could it be a problem with case in the directory names and how they get mounted in dosbox? Because when using the autoexec in dosbox, that does make a difference.

Either that or since a lot of games tend to use their config files for where to look for files, there could be a slight difference between how it was mounted in Windows as opposed to Linux, and the games are looking in the wrong place.

The main incompatibility dosbox with dos versus linux is people either mounting full absolute paths paths instead of relative; or using the '\' directory seperator instead of '/' on mount or imgmount (you should use '\' on the mounted drives ofc).

'/' apparently works on both linux and windows paths (windows mostly doesn't care about relative paths using / instead of \), so it's what i use along relative paths. But from the errors you showed, that doesn't sound like your problem.

in Windows where are the files on your hard drive (full path please) and what are your mount commands (all and exact)
On linux the same as above please.

This sounds as if you are not using the same paths and the game getting confused where everything is)