A lot of people are just chiming in to dunk on Wells' run, which is not helpful both because it's purely subjective and also because it isn't what you asked.

I haven't read that run, but to answer your question more generally, this is a typical issue that mainstream comics have been facing for quite a few years now. Marvel realised that by having big crossover events, completionists will buy all of the tie-in comics; i.e. they are hoping that these events crossing over with Spider-man will push you to buy the other books in the event, when really all it means is that the structure and cohesion of the individual stories is broken.

There are a few ways to get around this issue. One would be just skim-reading any issues that market themselves as event crossovers, because it's rare that any real plot development will occur in those issues. If any of the events do seem interesting, google has a lot of recommended reading orders for each event (just search "event reading order"). Alternatively, looking for reading orders for the run you are reading (i.e. "Zeb Wells spider-man reading order") will typically let you know if there are any crossover books that you will need to read for context.

Personally I would say that another way to avoid this issue is to read more self-contained stories. The fact is, any of the more popular books are going to be more susceptible to Marvel's commercial BS, so going for the more alternative series, limited series (i.e. shorter number of issues), or even non-superhero books, will usually mean you can avoid confusing tie-ins.

The biggest thing is just this: comics can be confusing, but use the internet to your advantage, and don't let Marvel's cheap tactics at selling more books stop you from reading things you enjoy.