Agreed. As you say, it’s such a shame that things have been left out; but at least a major wrong (ie EMR’s sometimes-terrible non-IC stock condition) is being put right.
Nevertheless, EMR and its passengers deserve absolutely every penny when it comes to the refurbishment - even if it’s expensive. Years of unacceptable suffering and neglect when it comes stock cascaded from other TOCs.
Finally, I know some may think that EMR doesn’t warrant such an expenditure given the low amount of money it contributes to the railway (many other TOCs are, of course, more lucrative), but IMO that’s no excuse - passengers pay money and they deserve comfortable accommodation.