It's not to hard to make 2 versions of a macro

macro 1: /attack + assist
macro 2 /use 13 14
macro 3: /castsequence spell,,,,,
macro 4: /castsequence spell ...........................

and then you make 2 different versions

F1 =
click macro 1
click macro 3
click macro 4

F2 =
click macro 1
click macro 2
click macro 3
click macro 4

you can swap back and fort between both of them at any given time, as they will just proceed, this way you could use the trinkets for the first waves in HoR but once you end up at the wave before the boss, you switch to the click macro that has no trinkets, that way they'll be off cooldown during the boss fight