A friend of mine who, independently of me, decided to try Comodo CIS 3.5 has brought this to my attention: In Defense+'s Image Execution Control, under the Files to Check tab, the “All Applications” group is actually the .com extension. From what I remember, it’s an old 16bit MS-DOS executable format, but I could be wrong. I do know that it’s an executable.
Also, after a bit of googling, I noticed that the .cmd extension is also missing. It’s essentially the same as a batch file, but typically used for shell scripts from NT4 onward.
Edit: Added *.cmd to thread title