Well I found a MX-1200 and MX-890, and both of them learn the IR codes perfectly well using the same PC and cable, so it has to be something flakey with the remote or possibly the CCP file? I tried erasing the remote in the setup menu (MAIN + ENT for 3+ seconds) and then redownloading the CCP file, and that didn't help.

Also just noticed that a few of my macros I use to shutdown my components (ie AV Receiver Off, TV Off, Cable Box Off) are not working either. None of the components are turning off. For the macros, I just brought the commands in from the IR database (duplicated what I used for each individual command). I did this prior to knowing how to use aliases. Maybe I need to try aliases instead. The individual commands do work if I do them separately.

So in summary, the remote can't learn IR, won't switch to certain inputs, and isn't working on certain macro commands.