I think Mueller and the FBI have enough to take Trump to a Grand Jury on obstruction of Justice charges.  Probably won't because it would be a waste of time due to his Presidential Immunity, but there is enough to create a presumption sufficient to go forward on a criminal complain (indictment) for a non immune individual.
Now, how that works out for people AROUND Trump is another matter.  They could be pardoned eventually.  But that doesn't mean it doesn't get cases against them in front of a Gran Jury in cases where there was participation - passing on messages, participating in Trump's decision making process, or even coming up with tactics and ideas.
I also think Trump's recent threats regarding withholding insurer reimbursements may violate the Hobbs Act.
I also think all of the above will be discussed in a report by Mueller to Congress/Dept. of Justice, a la the Starr Report.