If you wish to convert back, the Alpha 6 board can be removed, but you'll need to get the shorting link for the pins thus exposed. I think there's a fuse to add too, but Arcam should be able to assist...
I rather liked the Alpha 6 (upgrade) and sold very many of these at £200 or so as upgrades to happy clients. It's up to you I suppose as to whether you'd like it.
Now the good news! Les at Avondale can apparently do some wondrous things to a standard A5 including refurbished mechs, so if you need help with it, get in touch with him. He's a lovely chap and does other wonders for old nail Naims.....
Now, regarding the harshness you hear. Bearing in mind the "trouble" I'm in regarding my views on CD and vinyl I'll leave you with this:-
Arcam were importers of Audioquest cables at the time, and it's my personal belief that their CD players of this period were "voiced" to work with these cables, specifically the Audioquest Quartz, which sold for about £120 for a 1m Phono-phono pair at the time IIRC. Used with this interconnect, the slightly rough "sting" was completely removed and the result was entertaining and listenable for long periods.
Having the deck "Avondaled" may remove the necessity for this particular range of wires and if any re-conversion is necessary, I'd recommend you give Les a ring and ask him about the "6" conversion and whether he feels that this should be removed...
Good luck! Let us know how the tale unfolds..
Tear down these walls; Cut the ties that held me
Crying out at the top of my voice; Tell me now if you can hear me