Agnostic Rogue
 

I just built a barbarian rogue and went agnostic. Before I level it too far, I'm already five, is there a deity I should have chosen for end game stats?

Nah, deity specific gear for rogues is pretty bad across the board maybe with the exception of the Brell chain gear made by dwarven smiths, but even that isn't great. I chose Bristlebane for the RP factor, even though I don't even RP.

Agnostic is a good choice, the DE mask will let you travel through places like Neriak and the OT outpost.

I wish I had taken Tunare on Cec. Faction is a non-issue on a rogue. Although walking through Neriak with no faction work is pretty cool, you have tools to bypass all those KoS inkies anyway.