I'm using VisualBoyAdvance, maybe that's the issue. Or something completely random. I also used the latest version of the patch and never changed. It was a scary glitch but it worked out in the end, so all is good.
I just finished the game in Eirkia mode and I really enjoyed it. The final chapters (20 + F) were very interesting, and not just because of very hard enemies but because of enemy placement and weapons, very nice. Though I found it a bit tedious buying dozens of boosters after chapter 19 to be competetive for endgame. Seriously, you give out way too much money over the course of the game, money is never an issue, you only save it for buying boosters in the end. I would have liked it better if you would have lowered enemy stats slightly in the endgame, reduced money overall in the game and kept the price of boosters at 8k. Though I have to admit, it is somewhat nice to actually need to use fully capped units to their full potential for once. And stat caps really did matter a lot in the end, so I guess this was your approach and I'm fine with that.
The hardest chapter by far for me, and apparently many others, was still chapter 15. That's still a bit too tough at that point in the game, I think. Could use some (more) slight nerfs. Everything after that was fine to me. Chapter 18 was actually very easy, probably because you didn't buff monsters much, and the eggs only started growing very late, it was too easy. But again my special thanks for chapters 20 + F, they were well balanced (for a majorly boosted party) and pretty tough in a good way. F-2 was a bit strange though, the Demon King never moved (he moves in vanilla, doesn't he? I don't remember) and he didn't use any of his special attacks. That made it pretty easy.
As far as weapon balance goes I think you did a good job, though Killer weapons are availabe very early and are througout the game the most consistently good weapons up until endgame, where you switch mostly to sacred weapons. I preferred Killers over Silvers most of the time. Fenrir especially seemed pretty useless to me, Luna outclasses it in most ways (2 less weight, 30 more crit, cheaper, ignores RES, Fenrir only has 10 more hit). And for anima I preferred Alacalibur over Elfire most of the time, because of the crit bonus. I think this is a problem, because higher tier weapons should be more effective in general (and therefore more expensive), but that isn't the case here.
Well, those are my thoughts. Thank you for this mod, I enjoyed it a lot!