[Freesurfer] REPOST recon-all per hemisphere

Dear FreeSurfer experts,

I hava a question regarding rerunning the recon-process. I have cases where I do manual edits on a brain and only set a few control points on one hemisphere but white matter edits on the other. I would then run the -cp flag for one hemisphere and the -wm flag for the other. My question is, can that happen simultaneously, i.e. in different terminals or should I do one after the other because of some sort of interferences?

Also, I was wondering if it is possible to save surfaces from a BASE under a different name, run the recon-process again and compare the new surfaces with the old ones and then pick, if they are better, the old ones to go on to calculate the LONGs?

Thanks, Clara