diff --git a/emulator/Makefile b/emulator/Makefile
index dcc9b393..9aee51fd 100644
--- a/emulator/Makefile
+++ b/emulator/Makefile
@@ -70,7 +70,9 @@ test:
 # Run assembly tests and benchmarks
 #--------------------------------------------------------------------
 
+ifneq ($(MAKECMDGOALS),clean)
 -include $(generated_dir)/$(MODEL).$(CONFIG).d
+endif
 
 $(output_dir)/%.run: $(output_dir)/%.hex emulator-$(MODEL)-$(CONFIG)
 	./$(emu) +dramsim +max-cycles=$(timeout_cycles) +loadmem=$< none 2> /dev/null 2> $@ && [ $$PIPESTATUS -eq 0 ]
diff --git a/vsim/Makefile b/vsim/Makefile
index 84024df1..956d1ca4 100644
--- a/vsim/Makefile
+++ b/vsim/Makefile
@@ -21,7 +21,9 @@ TB ?= rocketTestHarness
 
 include $(base_dir)/Makefrag
 include $(sim_dir)/Makefrag
+ifneq ($(MAKECMDGOALS),clean)
 -include $(generated_dir)/$(MODEL).$(CONFIG).d
+endif
 include $(base_dir)/vsim/Makefrag-verilog
 
 all: $(simv)