diff --git a/lld/ELF/ScriptParser.cpp b/lld/ELF/ScriptParser.cpp
--- a/lld/ELF/ScriptParser.cpp
+++ b/lld/ELF/ScriptParser.cpp
@@ -898,6 +898,7 @@
     osd->osec.commands.push_back(
         readInputSectionRules(next(), withFlags, withoutFlags));
   }
+  osd->osec.phdrs = readOutputSectionPhdrs();
   return osd;
 }
 
diff --git a/lld/test/ELF/linkerscript/overlay-phdr.test b/lld/test/ELF/linkerscript/overlay-phdr.test
new file mode 100644
--- /dev/null
+++ b/lld/test/ELF/linkerscript/overlay-phdr.test
@@ -0,0 +1,33 @@
+# REQUIRES: x86
+# RUN: echo 'nop; .section .small, "a"; .long 0; .section .big, "a"; .quad 1;' \
+# RUN:   | llvm-mc -filetype=obj -triple=x86_64-unknown-linux - -o %t.o
+# RUN: ld.lld %t.o --script %s -o %t
+
+PHDRS {
+  PH1 PT_LOAD;
+  PH2 PT_LOAD;
+}
+
+SECTIONS {
+  OVERLAY 0x1000 : AT ( 0x4000 ) {
+    .out.big { *(.big) } : PH1
+    .out.small { *(.small) } : PH2
+  }
+}
+
+## A variant of overlay.test with explicit program header assingment.
+## Check that we generate two program headers consistent with the overlay
+
+# RUN: llvm-readelf --sections -l %t | FileCheck %s
+
+# CHECK: Section Headers:
+# CHECK: Name       Type     Address          Off    Size
+# CHECK: .out.big   PROGBITS 0000000000001000 001000 000008
+# CHECK: .out.small PROGBITS 0000000000001000 002000 000004
+# CHECK: .text      PROGBITS 0000000000001008 002008 000001
+
+
+# CHECK:      Program Headers:
+# CHECK:      Type Offset   VirtAddr           PhysAddr           FileSiz  MemSiz   Flg Align
+# CHECK-NEXT: LOAD 0x001000 0x0000000000001000 0x0000000000004000 0x000008 0x000008 R   0x1000
+# CHECK-NEXT: LOAD 0x002000 0x0000000000001000 0x0000000000004008 0x000009 0x000009 R E 0x1000