Here is how I organize my reading assessments.
I have a TON of folders leftover from when I did my master's project on comprehension. I purchased them on mega-clearance...I think it was a dime for five folders. Each color is a grade level according to Reading A-Z standards. In one bucket I have folders for levels AA-Z. I also have a list of "lifetime words" and high frequency words. I have a calculator, a timer, a pen, and a highlighter. Here is what is in each folder:
On one side are shrunken copies of the fluency checks for each reading level. I use a half-sheet for each student. On the other side is the running record that we do. Each level has a few "benchmark" books on Reading A-Z. I have a copy of the book for the students to read and then shrunken copies of the running record for me to mark. On the back of each running record are the comprehension questions from the website as well. I use a half-sheet for these, too.
Many teachers come to my room looking for masters to copy and they love that mine is organized so they can find things easily (and replace them!) and that all of the shrunken copies save on their copy budget, too.