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Did you remove the additional fuel filter you added? That's got to go.
Keep in mind that when you bypass that fuel pump/injection relay you are bypassing safety protocol that module provides. So I'm recommending this as a test , hoping you will be cautious in regard the putting the side stand down and not having the bike in neutral with the clutch out.That is very smart idea!
In case replacing the fuel pump en thoroughly cleaning the inside of the fuel tanks does not fix the problem, I will try doing that as a last resort.
Thanks for the help!
Clogged tank vent can also cause similar issues.
If you have correct fuel pressure at the rail, to rule out a tank venting issue, ride the bike with another key in the tank, cracked open.
At this point, I don't think the above is your issue but something electrical. Either a bad connection somewhere or again, a badly failing TPS (which you mentioned earlier, may NOT indeed have been changed)..
Did you go thru the dash/TPS and do a throttle "roll on" check looking for missing/skipping digits?
I hate throwing parts at an issue but a known bad TPS issue may still haunting you..
I would go thru ALL the connectors again, besides looking for corrosion but a wire potentially pulled out slightly..
It wouldn't hurt by passing all the safety switches including the side stand, clutch switch (likely not an issue) and the Red kill switch (forgot if you already did that..) The side stand switch, IF activating when it shouldn't, WILL kill the engine..
Is any of your dash cutting out/flickering when the engine acts up?
What did I learn of this?
The degree in which the symptoms can occur is variable. The bike can either lose all power and stall, or only lose (a little) power at the top of the rev range.
Any further ideas or suggestions?
I have not yet been able to determine whether or not the fuel pump is faulty, since the bike can not be plugged into a computer. I have Idea no on how I can somehow monitor the fuel pressure while the bike is running.
From post #12 earlier:
Check page 7-29 in the S1 Yamaha shop manual for pressure testing.
I believe you now have the shop manual as a PDF and can check the procedure..
You don't need a computer and the bike HAS to be running to check it..