Please note that the 6.0.4.6 has an important bug! I was facing a problem after restoring a rooted stock ROM (BNA2).
It was backed-up correctly and it didn't say anything strange during the restore but once I try to use my restored version, I get the message "com.google.process.gapps has stopped.." and it was impossible to use my phone! I spent a lot of time to find a solution and finally (after 3 weeks and more than 20 full installations!) I found it! The reason was a bug in this version 6.0.4.6!
So I've installed the Philz recovery, based on 6.0.4.8... same problem! I finally install an old version, based on 6.0.4.5 (philz_touch_6.00.8-serranoltexx.tar.md5) and there, miracle! My restore worked perfectly!
So, be very careful with this 6.0.4.6 version, and if you encount a process.gapps problem, you will know why