If you are looking for something less "academic" and more "practical," PropCalc is a great choice. It allows you to select from a database of motors and batteries to see how a specific propeller design will perform in the real world.
Builders using off-the-shelf APC propellers who need to simulate flight endurance and thrust-to-weight ratios. aircraft propeller design software download
Allows for full 3D blade design, structural analysis, and the ability to export 3D files for CNC or 3D printing. If you are looking for something less "academic"
What is the operational limit of your motor/engine? aircraft propeller design software download
Accessible via the APC Propellers technical section. 3. QBlade (Best Open Source CFD)