You can always just
#include "filename.c" from the inline C code. The only reason to compile separate units is to prevent symbol collisions, or enable parallel compilation, and in a small project those aren't really problems.
This is what I do in OpenGL::Sandbox
For that matter, the C code got so large I wanted syntax highlighting, so I put it all into a separate file anyway. Note that OpenGL::Sandbox has been retooled with Inline::Module so that when installed from CPAN, it compiles once at install time like a regular XS module. But, while developing you still get the advantage of automatic recompiles each time you load it.
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