Even in the current pre-alpha/alpha stage of Guile-Emacs, I can launch a thread from Scheme, do work, return to the main thread, then call an Elisp function on my result. (Scheme and Elisp data types are unified.) No bugs or unpleasant details there.
Calling Elisp functions and accessing Emacs data types (buffers, windows) from multiple threads is another issue; if you don't want to bother with it then don't; you still get all the other benefits of being on Guile. (Calling to any Guile module agnostically as if it were an Elisp library (including, say, Guile's OpenGL module), having an FFI, getting JIT or AOT native compilation in the future, etc.)
Yes, it would be nice, but can you imagine the bugs that will happen while everyone works out the details of how to do it properly?