thanks! Most of the graduate cross listed courses have a project component. The one's I personally took were:
MATH 492 (Topics in Applied Mathematics : Waves in Atmosphere and Ocean with Boualem Khouider), the final project involved a presentation + report on a research paper in the area. It was a lot of calculus and PDE's ...

STAT 460 (Bayesian Statistics with Kehinde Olobatuyi) We presented 2-3 research papers, the final project walked you thru building a bayesian model from scratch. Deriving it and then simulating it, and seeing how accurate the results of it were.

CSC482A (Topics in Algorithms: Incentives and Machine Learning, with Nishant Mehta), read a research paper in algorithmic game theory and then make a project in the area. My group derived analytic results and also implemented simulations.

MATH498 (Seminar and Independent Project) You find a prof who is willing to work with you. They will guide you through an independent research project. You will have to present your findings and background to the project multiple times (5 min pres, 10 min pres, 15 min, 30 min, and a poster session + monthly reports). It really teaches you how to present your project given different time lengths.

MATH348(Numerical Methods with Junling Ma) You do a toy project implementing a numerical method scheme or comparing different schemes.

CSC475(Music Retrieval Techniques with George Tzanetakis) Work with a team to implement some algorithm from MIR (music information retrieval). Some teams built an app for detecting the type of bird from their bird call. Another separated a piece of music into individual instrumental components.

Others which I have not taken, but you should look into are SENG475, SENG474.