So sorry it's taken so long to reply to this. I've been wanting to write up a tutorial to answer this but just haven't found the time.
The short answer is that Wagn manages all relationships with Pointers and Searches. Pointers assign the relationship, and searches detect it.
So the Process card might contain a +methods pointer cards for assigning related methods, and the Method card might contain a +process Search card. Or vice versa.
By default, this is a many-to-many relationship, but you can contrain this (eg via *option and *input rules on the pointer cards) to restrict it and create one-to-many, many-to-one, or one-to-one relationships.