I can only speak to the temperature probes that I have experience with (Apex.) As they are sealed, vinegar is fine (warmed it works faster.) According to Neptune, the temp probes on the Apex is factory calibrated and unlike most probes, doesn't normally need to be re-calibrated.

pH probes can also be cleaned using vinegar, but you will need to re-calibrate them after cleaning. A soft bristle toothbrush can also be used to gently brush off any sediment.