It sounds like your front brakes were never being used and the back brakes were doing all the work (yikes!). Stuck calipers or jammed brake pads could cause the front brakes not to function.
If they weren't functioning for 6 years, it was probably a good idea to swap them out (though I prefer to test anything before replacing).
A failing brake circuit (front?) in the MC is usually the result of air trapped between the two circuits (improper bleeding) , bad MC seals, or obstructed ports.
Did you bleed the new MC before you installed it? This is a procedure that is often skipped and can cause of lots of frustration down the line. Air in the MC can result in damaged seals after many cycles.
Since you've replaced everything, I would start from square one and re-bleed the master cylinder before hooking it up to the brake lines. Use clear tubing if you can to assure all the air is out. Then bleed from the master cylinder down to each caliper.
Reverse bleeding can bring air back into the MC and defeat the exercise. It's better to reverse bleed the caliper and line before you connect them to the MC, and then bleed down in the normal fashion ( pump the brakes, power bleed, vacuum bleed). And if air gets into the MC during the process (failure to keep reservoir filled), wash, rinse, repeat.
Good Luck!