The criteria are slightly different for the two lists in one of the ten categories they rate, so they shouldn't be directly compared. But it's such a small difference that the magazine frequently violates its own rule to produce additional lists.
The difference in criteria is also somewhat incoherent: I can see why 2(a) should apply to classic courses, but not why 2(b) applies only to modern courses.
2A. Integrity of original design (Classic)
The extent to which subsequent changes are compatible with the original design and enhance the course rather than undermine or weaken it.
2B. Quality of feature shaping (Modern)
The extent to which the land’s features have been enhanced though earthmoving and shaping to form a landscape that suits the game and has aesthetic/thematic coherence
I understand why Golfweek feels the need to have a 2a and 2b, Even if it would seem that 2A should be used when evaluating a modern course built 60 years ago and 2b should be used when evaluating a classic course that has gone through a restoration.
In the end, I'd expect the magnitude of change from this one question to be relatively insignificant on the overall rating. Especially considering the collection of all raters evaluations for any given course. I'd also anticipate if a course scored poorly or extremely well in either 2a or 2b, the justification for the score in question 2 will also impact the score for multiple other questions in the rating criteria.