Check for IRQ sharing on USB, and Device Manager for conflicts.
Is there another keyboard available to try, just to rule out the source?

Open the animated drums module and record a small section on that.
If you haven't used it before, open it up and use the red record button from inside the module, then click on the drums (or use the computer keyboard to play it while recording. See if all the midi gets recorded that way or if it is still missing beats.

Is the system working OK for audio?

I do not work here, but the benefits are still awesome
Make your sound your own!