Lankydoug,
Here is some more info on the WR250 BFY needles. The stock needle being a 6BFY43-74, the 74 is the starting diameter as in 2.74mm, a -73 would be a 2.73mm starting diameter which is thinner and would be a richer needle. I haven't figured out exactly what the 43 represents, but from what I have gathered I believe that a 6BFY44-74 would be a 1/2 clip richer needle than the 6BFY43-74. A 42 would be 1/2 clip leaner. I believe the 6 at the front of the code is the length series as in 6x.xx mm long. The stock needle is 68.965mm long. The BFY are the codes for the taper angles. B=0*15", F=1*30", Y=6*15". I think they go through the alphabet in 15" increments. This is what I have gathered from searching as much as I could and taking notes overthe past few years. I think it is correct, but if it is not I hope someone will let us know.
It may be that a 1/2 clip brother to the stock needle may be what you need, but if you have been trying different settings with 1/2 clip washers, maybe not. Maybe a different diameter may be worth a try. Maybe you could get a couple different YZ needles to try. I thought Halls sold me just the GAY needle, but it was awhile ago so I forget. I measued both needles and the GAY needle is close to the BFY up to 1/4 throttle. Then it is 0.15mm thicker at 1/2, 0.13 thicker at 3/4, and 0.1mm thicker about 6.5mm from the tip. The other difference is the GAY needle has a smooth taper vs the steep one about 12 mm up on the BFY. I liked the way my bike ran at elevation with the GAY in 3rd. If you get the GAY needle I would recommend trying it in the 4th at your elev. I know the BFY works well in the 2nd for me and I look forward to testing them back to back this spring when the temperatures are warmer.
Another thing you may want to try is just a different main jet. If you had it running well before the pipe change with the stock needle and now it has a rich stutter over 3/4, maybe a leaner main would do it. From my measurements, it appears that the sharp taper on the BFY is right at 3/4 throttle.