Yes, you can take them separately.

I bet the Metanx does not say empty stomach either?
Unless that has changed recently.

You can get the methylcobalamin and take 5mg daily for 3 months on an empty stomach. It is very inexpensive. Swanson's, Puritan's Pride, Vitacost etc.

The methylfolate is OTC too, and Solgar makes one at 800mcg.
One of these a day is enough. Folate is not typically a player for PNers, unless they have that genetic mutation...MTHFR polymorphism. I agree with you that massive doses of this are not needed. You might want to watch your foods, and try to keep folic acid levels down, since some papers now suggest that folic acid in fortified foods may compete for methylfolate at the blood brain barrier. This will probably cost the most for you...iherb.com may help with that. There may be other brands now out there less expensive, but Solgar brought it out first OTC on the second round of availability after Merck company refused to sell it OTC! That was a huge scandal, but is now over.

P5P by NOW is a good brand, and is enteric coated as well. It is not expensive. There is a movement now by a drug company to take THIS off OTC status so it won't compete with a new P5P being developed RX...I hope this is till available therefore.

One of each of these a day should help you in a way similar to Metanx.