Touche! :D
The point still stands. If "mostly-automated one-to-one spelling and hyphenation updates" changes 'wand'ring' to 'wandering', 'worth's' to 'worth is' or 'Love's' to 'Love is', you break the sonnet.
In that example, "vnknowne" is pronounced the same as "unknown", despite having an extra "vowel" in the typography.
A mechanical modernization and standardization would seem to run a significant risk of damaging some of these, though proper manual final review would hopefully catch and revert the problematic cases.
How many syllables are in the word 'wandring'? How many are in the word 'wandering'?
Sadly, the modernization breaks the meter and it's no longer a sonnet. I have a sneaky suspicion The Bard was deliberate in his choice of spelling...