You need to do (and excuse me if the command line isn't quite right here) a "protect +p ". Replace with the filename of the command resident is trying to residentify.
The pure bit specifies that a program can be made resident. There are special rules that residentable programs need to adhere to, which I would have to look up, but if this is a command in the standard startup-sequence, then just set the pure bit using protect as above, and everything should be ok.
Chris