You can successfully compile a Flixel project on Ubuntu by downloading the Flex SDK, adding it to your PATH, and running mxmlc YourMainGameFile.as -static-link-runtime-shared-libraries=true

You can successfully compile a Flixel project on Ubuntu by downloading the Flex SDK, adding it to your PATH, and running mxmlc YourMainGameFile.as -static-link-runtime-shared-libraries=true

OR

Install Eclipse 3.7 Indigo, FDT 5 (http://marketplace.eclipse.org/content/fdt-1#.UPolm32Ux0w), and the Flex SDK mentioned above. Make a new Flash Web project and setup a run config.