When aot project with quite few references.
Do you have a testcase ? It would require one assembly referencing about 240 directly or indirectly.
I have test case. It's generated project with ~2k of references
Steps to reproduce using Mono master and MD (latest refresh)
1. mono/mcs/tests run make gen-mt-tests
2. open project from mono/mcs/tests/projects/MonoTouch/MonoTouch.csproj using MD
3. disable linker (it's buggy for the project) and try to compile for device
Fixed in master.