After Restoring with Migration Assistant internet accounts are not working properly

Hello!
My Macbook Pro's HDD fried a week ago, so I swapped it for a new one. I had a backup from about 30mins before the issue happened, so I thought everything would go fine with Time Machine. Well, not quite. After installing Mac OS X Mavericks from the Disk Utility and telling the system to apply the latest backup on Migration Assistant during the installation, everything started up the way I left it, but several problems showed up and I have been trying to troubleshoot them.
Issues:
1. I used to have Facebook, Twitter and two Gmail accounts logged via the Internet Accounts preferences. Used the gmail accounts for notes, contacts and calendars. Now, they all show up on the menu, but when I click on any of them it tells me they aren't connected and asks me for their password. When I put it down, it gives me an "Unable to verify account" message. If I delete the accounts and try to reinsert them, I get the same message. What's even more weird: When I restart, they are all there again.
2. Notes doesn't update properly. It shows me all the notes up until like 4 weeks ago, and whenever I even click on the app's window, it tells me it can't connect to Gmail and asks me for its password again. Several other apps that require syncing, like Calendar, have the same issue.
Troubleshooting attempts:
1. It's not a problem with these accounts, as I've been able to sync them no problem if I create a new user. But I had some serious work being done and I don't really want to get a fresh start.
2. I tried doing a clean install and when the Migration Assistant showed up I asked to transfer everything except personal documents and data. It worked, but I lost all my personal files that are not on dropbox (not many, but there were a few important things). Also the wifi didn't connect at all, kept saying it was self assigning an IP or whatever. This did not happen before.
3. Not using migration assistant at all, but restarting the system and restoring a time machine backup, even an earlier one from that same day. Mac gets stuck on spinning wheel during boot :/
This killed my weekend's productivity already, as each clean install and time machine restoring takes 3hrs+. I don't know what to do at this point.
Macbook Pro, Early 2011, 13". Old HDD 320gb, new one 500gb. OS X Mavericks 10.9.4 (the backup is from 10.9.3)

ragob66,
Welcome to the Apple discussions!
Try this:
*Accessing Time Machine Backups From Another User Account or Computer*
Yes, you can do this using the Time Machine interface.
Attach the drive containing the TM backups to your computer.
Control-click the TM icon in the dock and select "Browse Other Time Machine Disks...".
Highlight the desired disk and click “Use Selected Disk”. This will now allow you to browse those TM backups via the ‘time travel’ window. From here you can restore what files you need access to. Bear in mind that any files moved will have the permissions of that previous user account. Thus you may be prompted for the user name and password of that previous account. However, once verified you should be able to adjust “Sharing & Permissions” in the files “Get Info” window.
Let us know if this resolved your issue.
Glenn

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ragob66,
Welcome to the Apple discussions!
Try this:
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