How to 'Fix or Freeze' Flexed Tracks?

I am looking for the best way to fix flexed audio tracks in their new state once I am satisfied with the editing etc.
What is the best way to save them? By freezing the track, or bouncing it to make a separate audio file? Or any other way?
And then can I delete the old regions, as they may be referenced by other arrangements? Would that save some processing power as well?
I presume I should re-beat map the track/s (i'm editing drums), to make sure my quantising represents 'on the beat'?
The problem I've having is that, for whatever reason, sometimes I find that when I re-open a file with previously flexed tracks, one or two of the tracks have 'forgotten' their flexed state and have flexed themselves according to their own transients rather than to the transients on the Q marked tracks I have chosen in the phase locked group.
I'm editing drums and I set and adjust the transients within the sampler editor of the bass & snare tracks and then choose these as the Q tracks for the drum group, which includes toms, hihat and overheads. Often, is the overheads that forget the Q transients and slip forward and out of phase with the rest of the drums, In flex view mode you can see the flex lines are not lined up within the grouped tracks.

I have ran ssocfg:
oracle@server:/oracle/mid/oracleosd/sso/bin> export ORACLE_HOME=/oracle/mid/oracleosd
oracle@server:/oracle/mid/oracleosd/sso/bin> export ORACLE_SID=ASDB
oracle@server:/oracle/mid/oracleosd/sso/bin> ./ssocfg.sh http server.domain 7777
running ssocfg.sh
finished running ssocfg.sh, exit status 0 I also have checked OperationURLs of oiddas in OID (using Directory Manager). It is correct: http//server.domain:7777/
After this I have restarted all the components of Fusion Middleware. But unfortunately, the problem still exists...
Does anyone else got some ideas?

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