diff --git a/src/install/bin.zig b/src/install/bin.zig
index 01cdcbd113..ae8d852208 100644
--- a/src/install/bin.zig
+++ b/src/install/bin.zig
@@ -483,6 +483,11 @@ pub const Bin = extern struct {
             const abs_exe_file: [:0]const u16 = dest_buf[0 .. abs_dest_w.len + ".exe".len :0];
 
             bun.sys.File.writeFile(bun.invalid_fd, abs_exe_file, WinBinLinkingShim.embedded_executable_data).unwrap() catch |err| {
+                if (err == error.EBUSY) {
+                    // exe is most likely running. bunx file has already been updated, ignore error
+                    return;
+                }
+
                 this.err = err;
                 return;
             };
diff --git a/src/install/install.zig b/src/install/install.zig
index cb61f02200..dbb3504a89 100644
--- a/src/install/install.zig
+++ b/src/install/install.zig
@@ -1207,8 +1207,13 @@ pub fn NewPackageInstall(comptime kind: PkgInstallKind) type {
             if (!package_json_checker.has_found_version and resolution_tag != .workspace) return false;
 
             const found_version = package_json_checker.found_version;
+
+            // exclude build tags from comparsion
+            // https://github.com/oven-sh/bun/issues/13563
+            const found_version_end = strings.lastIndexOfChar(found_version, '+') orelse found_version.len;
+            const expected_version_end = strings.lastIndexOfChar(this.package_version, '+') orelse this.package_version.len;
             // Check if the version matches
-            if (!strings.eql(found_version, this.package_version)) {
+            if (!strings.eql(found_version[0..found_version_end], this.package_version[0..expected_version_end])) {
                 const offset = brk: {
                     // ASCII only.
                     for (0..found_version.len) |c| {