SHIELD of course has always been that way. Avengers, FF, X-Men have always dealt with them.
But what other groups should be something shown across the board on Earth 616?
Commission on Superhuman Activities? Should this Presidential advisory group be shown with regards to any U.S. superhuman activity?
What about Hench and Lackey...the dueling super villain apps from the Ant-Man series? Should Spidey or DD have to deal with a group of super villains hired to pull a job thru one of the apps? Should any of the teams (Avengers/FF/X-Men)? Imagine a big fight and after the good guys win one of the bad guys makes a comment about getting a bad review...or giving a bad review to the guy who hired them for the job.
Not saying they have to be in all books all the time...but the occasional appearance or mention. For example when Matt Murdock was fighting in court for super heroes to testify in their super hero identities I would think the Commission would have made an appearance as it is something that would be in their purview.
What do you got?