I'm curious what you think, in terms of setting up an in-house program: which is more important, the affiliate tracking system used or the offerings of the program?

I picked what I think is a good system (ClickInc.) and set up what I think is a nice program (51% commission). But I'm not sure of either.

What matters most to you? Obviously you don't want to have a bad system or program, but if one was going to make the difference between you choosing a program or not, which would it be?

Thanks for any insights you can provide.