Would be a good idea if you could get a graph of your bit loading, so see how the line is being utilised + loaded.
If certain upstream tones arent being utilised it would suggest some sort of interference at those tones, but it could just be down to length of the line... which in your case is likely.
It should be borne in mind, that many of the upstream tones are 'capped' to prevent cross-talk between upstream/downstream on Annex_A and Annex_M., using something called power cut back. Its also applied to some of the lower upstream channels to prevent x-talk between dsl and telephony. This is why on a perfect line you will often see an inverted 'U' shape on the upstream bit loading graph... and also on the lower downstream tones.
Upstream and downstream tones are kept separate. By going on premium, it doesnt give you access to more tones, it just increases a cap set on the BTw network which allows you to make use of more upstream speed - if your line can handle it.
Its only when you go utilise Annex_M that the upstream tones are shifted., by taking away some of the "usual downstream" ones.
Youre pushing your upstream speed to the maximum now, which is why its seems a bit more unsettled.
Theres probably far more bit swapping going on.. and over time its probable that because of the bitswapping more tones perhaps are being marked by your router as unusable until you do a full resync at a time of the day when the line is at its optimum.
If it continues then it may be that the line may work best capped at 448 upstream. Just like some lines have to have their downstream capped at say 500k or 1Mb to maintain stability.
Even the LLU providers have this profile because some longer lines do start to struggle if you push the upstream too high so they will cap the upstream to around 448 to prevent this.
Annex_M is not recommended on long lines for a similar reason and you will sometimes find that the amount of increased upstream gained is less than what is taken away from the downstream.