Have you tried it with harder alloy. 20 bhn, which is water dropped WW alloy, one day or more after casting.
In my experiance with 30-06 and soft (12 BHN) bullets, 2400 fps is obtainable if everything is perfect about the throat, bullet etc. but by using the slowest powders. Even incresing hardness to 16 bhn will make a dramatic difference in the amount of pressure that can be put behind the bullet, yet that hardness will expand well on game, if that is one of your concerns.
At this point I'm sceptic about glue on patch with this rifle for two reasons. !. I've recently had some poor customer feedback when a large throated rifle was used. 2. If you can't make the bullet you have shoot, and it should drive tacks at some speed, then just trying a glue on patch bullet in a gun that has proven itself to have a problem, would be a wild guess. I have a strong aversion to guessing while buying molds, and an even stronger dislike for selling molds on a guess!
Cast bullets are a mechanical thing and the answers are all scientifically precise. We need to find your real problem here first. You have really jumped through a bunch of hoops with this rifle, done everything I have suggested, and have prooven it accurate with jacketed. Also the sample cast bullets you sent for me to inspect were of excellent quality, and should shoot very well.
Have you made a throat slug since having the gun rethroated? If not, I believe a throat slug, laid alongside your cast loads, and perhaps with some precise measuring, will show a distinct problem that can be fixed. Definately the fastest way for you and me to work this thing out is for you to email me direct, rather than posting your questions, because I try to answer emails every night, though I sometimes skip a day. But the forum, I often don't look at for more than a week. Once we find the solution we can jump back on the forum and inform everyone of the findings.
You see, what really bugs me is the fact that I've never seen a rifle that I couldn't have shooting cast into tight groups if I had it in my hands for a while. Normally the first bullet mold I make, and first loads will not shoot over 1 1/2 inchs at 100 yards, and often go into a half inch. Therefore, I'm convinced we are missing some critical thing here in our correspondence, and I'd like to get a choke hold on it quick like. So don't give up yet. Hit me by email, and let me know about a throat slug. We'll go from there fast as possible. Don't waste any more of your time, primers and powder experimenting, except to try good hard bullets with the powders you named above, or the slowest power suited to the 06 behind your soft slugs. If you try the slower powder, start with a charge that predicts maybe 2200 fps, and several higher till you find the velocity where accuracy goes south.