This may be one of a couple of issues; you haven't given much in the way of details. "Some comboboxes are not shown" doesn't help a lot.
The things I've run across that caused these kinds of problems:
- Large fonts when the app was designed with normal fonts
- Custom DPI settings (eg., 120 DPI instead of the "standard" 96 DPI)
EDIT after Brian's comment:
That's really strange. I've never seen visual differences between apps compiled in the IDE and command-line.
The only thing I can think of is that the command-line version might have some compiler defines that are affecting the comboboxes (unlikely), or the command-line version is seeing a different version of the .pas and .dfm and that version doesn't have the comboboxes on the form.
You might try making sure that there is only a single copy of the affected .dfm and .pas files on the build machine, and then verify they have the right appearance before compilation. (Use Windows search to check for multiple copies of the source files, and search the entire system just to make sure.)
I've never had this issue with visual controls, but have had it with source changes that didn't seem to take effect, or breakpoints that didn't break because the compiler was seeing a different version of the file than I was... I don't know if that's the case here, but it might be worth checking.