diff --git a/tools/lib/bpf/libbpf.c b/tools/lib/bpf/libbpf.c
index a557718401e4..4c34fbd7b5be 100644
--- a/tools/lib/bpf/libbpf.c
+++ b/tools/lib/bpf/libbpf.c
@@ -7533,6 +7533,12 @@ static int bpf_object__resolve_ksym_func_btf_id(struct bpf_object *obj,
 	ext->is_set = true;
 	ext->ksym.kernel_btf_id = kfunc_id;
 	ext->ksym.btf_fd_idx = mod_btf ? mod_btf->fd_array_idx : 0;
+	/* Also set kernel_btf_obj_fd to make sure that bpf_object__relocate_data()
+	 * populates FD into ld_imm64 insn when it's used to point to kfunc.
+	 * {kernel_btf_id, btf_fd_idx} -> fixup bpf_call.
+	 * {kernel_btf_id, kernel_btf_obj_fd} -> fixup ld_imm64.
+	 */
+	ext->ksym.kernel_btf_obj_fd = mod_btf ? mod_btf->fd : 0;
 	pr_debug("extern (func ksym) '%s': resolved to kernel [%d]\n",
 		 ext->name, kfunc_id);