"A story is a story is a story" is a tautology that doesn't get into what makes a story, or what specific comic books make up Spider-Man's story.
I'll admit I like ambiguity. I like working through things that aren't clear-cut. For example, when is an adaptation of Shakespeare a different story from another? I do think there are points at which different drafts of a story are different stories.
Language evolves. I'm always suspicious of efforts to police it.
We've established the Wells run is not like Silver Age DC in terms of issue to issue continuity.
In general, I trust people more if their comments on objective things don't align with their opinions. If someone says that a thing that they don't like is objectively bad, it seems convenient. If they say that a thing they like is objectively bad, that's interesting.
Personally I tried to be careful about comments about things that are objective because it's bad to be wrong on that. I get for some people it's more about signaling than anything else, and being taken seriously rather than literally (IE- the person yelling "Are you f***ing blind?" at the referee probably does not believe that the referee is actually blind.)
The Beyond era can definitely be seen as part of Wells' run, at least if you're analyzing it as a story. He worked on pivotal issues, and continues plot points from it.
There are still episodes in the alien costume saga, which also intersects with Spider-Man's other adventures at the same time in the satellite books.
Here are the Spider-family books in the Top 50.
1. Ultimate Spider-Man #4
4. Amazing Spider-Man #47
8. Amazing Spider-Man #48
17. Spectacular Spider-Men #2
20. Edge of Spider-Verse #3
27. Ultimate Spider-Man #1
Here are the super-family books in the Top 50.
21. Action Comics #1064 (House of Brainiac)
25. Superman #13 (House of Brainiac)
30. Batman and Superman Worlds Finest #26
Here are the bat-family books in the Top 50.
23. Nightwing #113 (It's interesting that this is the best-seller, likely an indication of Tom Taylor's prominence)
38. The Batman- First Knight #2
41. Detective Comics #1084
43. Batman #146 (Honestly, I haven't paid attention to the decline in Batman rankings- what the hell happened here?)
46. Batman and Robin #8
And there was also the World's Finest issue.
There are as many Spider-Man comics in the Top 50 as Batman comics, but the Spider-Man comics are higher-ranked, with four of the bat-books in the bottom quarter. And the Superman books have a crossover which bumps sales.
This comparison looks good for Marvel.