Steam (also Raptr) was the cause of the Origin overlay issue, at least for me, and I tried every other suggestions/known issues around the internet trying to find a **bleep** ing fix for it. Turns out, all I had to do was simply close/exit Steam & or Raptr, then run the game from my desktop shortcut or through Origin directly. You can re-open Steam/Raptr after the game is running, if you want, I see no reason you would absolutely need Steam to be open, so I dont bother. (Raptr, however, tracks my play time and gives rewards and so on. So I would re-open Raptr personally.) Unless I'm planning on using Steam to chat, since the larger sum of my friends are on Steam more than Origin. (I suggest to wait till you hit the main menu of Titanfall before opening Steam/Raptr, just to confirm that it is now running with the Origin overlay and shows that the store is available.
Step by Step Summary
1.) Exit/Close all the way out of Steam/Raptr. Make sure to check your system tray, it may have minimized either of them rather than actually closing them.
2.) run the game.
3.) Play Titanfall with the overlay and friends. ENJOY!
Additional Info: It was not the Overlays themselves of Steam nor Raptr that were effecting the Origin Overlay as I had turned them both off theorizing that was the problem at the time. What is the cause? idk maybe Origin is just a pile of **bleep** at the moment or its a method of consumer control which makes sense it is EA after all they only want you to play their products and use their software. (sounds like **bleep** microsoft too.) Well, what would you do if you were that greedy? Hmmm I'd make an overlay that is broken if anyother overlay program is runnng, nice... Dicks.