For the first annoying sidequest that requires Wild Side, just continue the story a little bit until you have 5 characters. Then whenever one of the 3 enters pep, switch them out of the party, this will freeze their pep skill duration until you switch them back in. This way you only need to sync the other 2 members, finish your fight, engage the right enemy, swap in the 3rd guy and do the pep and finish the quest. It becomes less annoying later, and then more annoying when they start requiring you kill the monster with the actual pep skill that does a third of the damage of a normal attack.
