Here's a potential example of why your supplementation is not working anymore. It has to do with being overloaded with methyl forms of B12 and folate. It's characterized as "the honeymoon". You feel great at first but a week or two out and it's back to your old symptoms. MTHFR site has a ton of info on B12/folate but is not always the easiest to find what you're looking for.

If this is the case, more is not better. Stopping it for a while and re-introducting them one at a time can provide you with some insights. And, maybe just take them every two or three days versus daily. It can be a bit overwhelming to figure out.

http://mthfr.net/methylfolate-side-effects/2012/03/01/

Specific to your questions, we take a separate B12 on an empty stomach and then include a B complex with a full meal. We don't do this daily anymore. It's more to maintain levels vs restoring a deficiency.