CP2000 after CP3219A: Still file petition?

I received a CP3219A from the IRS. After submitting additional documents, I have now received a CP2000 for the same year with an amount due that is less than what was on the CP3219A. There was also a note on the CP2000 reminding me that the deadline to file a petition has not been extended, meaning if I still intended to file I must do so by the previously stated deadline. I still don't agree with the new amount due proposed on the more recent CP2000 and already responded to that notice with supporting documents. Now, I am not sure if I should still file the petition since after responding to the CP3219A notice, the IRS sent me a CP2000. Any input is greatly appreciated.