using 24mhz on board oscillator clock on bemicro CV board

Not specifying a rise/fall time will not cause this problem, no. You doubt you need worry about the difference between 24MHz & 25MHz either - assuming you haven't got many/any ridiculously long combinatorial paths in your design. Anyway, you've constrained your clock more tightly - 25MHz - than the one you're actually using. So, no. don't worry about that.

You don't actually say but, having lost the 'tied to zero' warning, does your debug clock appear? I guess not. There's nothing in the qsf entries you posted that will cause you this problem...

Cheers,

Alex