Thank you for your replies guys, the issue is over almost.
Yes
wige the client has moved the entire site to a sub folder. The redirection was already done so no issue with that. The webmaster console is gathering stats and has verified the files. It seems the only issue was the TIME to record the changes, which apparently are being recorded successfully.
One more thing, the site was optimized and moved at very close intervals. The rankings are there for a few keywords on msn only. Waiting for the rest
Thank you again