The objective of reading/review academic papers is to critically analyze research studies.
Critical reading is basically a process where you ask yourself questions as you're reading, such as:
- What was the objective of the research study?
- Did the researchers accomplish this?
- Why or why not?
- Why is the study important?
- What are the implications of the findings?
- How does this paper contribute knowledge to society?
- Do I want to borrow an idea from this paper?
- Do I believe something can be improved?
Answering those questions will help you figure out what you've read and why it was relevant to you and the research study you'll end up designing. It can also help you as you target each section, it's not always clear cut the order in which you'll read the paper critically.
Now that you know what to look for, how you organize those notes is up to your individual preference. There are many options available: hand written notes, digital notes, laptop, ipad, etc. I personally like to use a matrix format with different fields, such as objective, method, findings, theoretical model, etc.