I would normally try to record the direct output from keyboards where ever possible, UNLESS the keyboard amp is being used to create a specific sound, ie a Hammond connected to a leslie cab.
You'll save yourself a lot of grief later by recording the direct output as it results in total isolation of the sound with zero spill.
Method, in personal preference order,
direct from keyboard(s)
split from DI box(s)
Aux out (or direct out) from PA mixer or keyboard sub mixer
direct out from keyboard amp
mic on keyboard amp (unless it's a leslie cab in which case this option goes to the top)
The other option of course is a complete set of direct feeds of everything from the PA mixer if available, or if you're doing the PA and have a digital mixer you can just hit record on your connected laptop to get all the individual feeds.