On your rig, fuel delivery is determined by Manifold Absolute Pressure. Your symptoms however sound exactly like fuel starvation. An obstructed fuel pump or filter will still slow enough to start, but not enough to deliver power at cruising speeds. Your problem could go away after a restart simply because shutting everything off lets the flakes fall away from the strainer.
Delamination is not a rare problem unfortunately, and bio-fuels (i.e. ethanol) seem to contributor, as some components were never designed for it. It could also just be plain old rust, if water had ever gotten in there previously. Either way.... fuel pumps and fuel filters don't normally plug up like that repeatedly, unless there is a problem with the tank.