Is there a way in cryoSPARC-Live to set thresholds so that if your image falls outside of on CTF fit, tilt, etc. it gets auto rejected?
Yes, you can do this in the overview tab - once you set thresholds there they are automatically applied to future exposures
Adding onto this, check out this article in our guide:
https://guide.cryosparc.com/live/new-live-session-start-to-finish-guide#4.-exclude-poor-quality-exposures-from-downstream-processing