[Q] Could a restored backup ROM have issues?

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http://forum.xda-developers.com – Hey guys, I've been silently stalking these forums for a while, but decided I wanted to be a part of this community myself. Anyway, here's my question: I recently flashed CM10 onto my new Galaxy S3, and just decided that I like the functions of Touchwiz better than AOSP. No problem, I had made a backup, so I wiped my data and cache (not sure if that was necessary) and flashed back, then rebooted. Again, no issues. However, I noticed upon flasing back that I had some blank home screens that I didn't used to have. Still no issue, I deleted them. However, my setting menu seems a little lagg (HowTos)