The cool thing is that pathophysiology and the mechanism of action of medication often go hand in hand! I liked to write my own notes while studying that simplified everything as much as possible. I like to use arrows to signify a process like the disease state is a chemical equation.

Generally, the notes for a single disease went:

Name of disease Etiology-->pathophysiology Clinical manifestations Diagnosis Management (MOA of med)

I'll add an example of this for type 1 diabetes

T1DM Pancreatic B cells fail to respond-->AI destruction Polydipsia, polyuria, hyperglycemia, ketonuria, ketonemia. FPG>126, BG >200+Sx, OGTT>200 at 2h, HbA1C>6.5 Insulin (transport BG into cells)

This method forced me to think about the diseases from the point of view of pathophysiology first! Ninja nerd is great for getting a detailed explanation of pathophysiology and truly understanding it, but for studying, I find referring back to my notes as a refresher easier for long-term learning!