diff --git a/src/core.zig b/src/core.zig
index 00f770b..0ed6fa2 100644
--- a/src/core.zig
+++ b/src/core.zig
@@ -184,13 +184,22 @@ pub const Compilation = struct {
         ir.Interpreter.last_bail_builtin = null;
         ir.Interpreter.last_bail_detail = null;
         const result = interp.call(id, args) catch |err| {
-            if (interp.output.items.len > 0) std.debug.print("{s}", .{interp.output.items});
+            flushInterpOutput(interp.output.items);
             return err;
         };
-        if (interp.output.items.len > 0) std.debug.print("{s}", .{interp.output.items});
+        flushInterpOutput(interp.output.items);
         return result;
     }
 
+    /// #run / post-link callback `print` output lands here. Routes to
+    /// fd 1 (stdout) so it joins the JIT-executed runtime's output
+    /// stream — the user wrote `print(...)` in both call sites, so
+    /// the stream split is invisible to them. issue-0047.
+    fn flushInterpOutput(bytes: []const u8) void {
+        if (bytes.len == 0) return;
+        _ = std.c.write(1, bytes.ptr, bytes.len);
+    }
+
     /// Get link flags accumulated from #run build blocks.
     pub fn getBuildLinkFlags(self: *Compilation) []const []const u8 {
         if (self.ir_emitter) |*e| return e.build_config.link_flags.items;
diff --git a/src/ir/emit_llvm.zig b/src/ir/emit_llvm.zig
index 64bc568..9f6b583 100644
--- a/src/ir/emit_llvm.zig
+++ b/src/ir/emit_llvm.zig
@@ -1128,9 +1128,11 @@ pub const LLVMEmitter = struct {
             var interp_inst = Interpreter.init(self.ir_mod, self.alloc);
             interp_inst.build_config = &self.build_config;
             _ = interp_inst.call(func_id, &.{}) catch {};
-            // Write comptime output to stderr (same as old comptime VM)
+            // Route #run `print` output to fd 1 so it joins the
+            // JIT-executed runtime's stream. Same call site shape as
+            // `core.flushInterpOutput` — see issue-0047.
             if (interp_inst.output.items.len > 0) {
-                std.debug.print("{s}", .{interp_inst.output.items});
+                _ = std.c.write(1, interp_inst.output.items.ptr, interp_inst.output.items.len);
             }
             interp_inst.deinit();
         }
diff --git a/src/main.zig b/src/main.zig
index 6b24d66..83a1cf2 100644
--- a/src/main.zig
+++ b/src/main.zig
@@ -290,7 +290,14 @@ pub fn main(init: std.process.Init) !void {
         // run-time output ambiguously. Only when top-level #run exists —
         // pure-runtime tests keep their current snapshots.
         if (hasTopLevelRun(root)) {
-            std.debug.print("--- build done ---\n", .{});
+            // Stay on the same stream as the #run output (stdout, via
+            // core.flushInterpOutput). Same reason as issue-0047: the
+            // user doesn't distinguish build-time `print` from
+            // runtime `print` at the call site, and the delimiter is
+            // meaningless if it lands on a different stream than the
+            // output it's separating.
+            const marker = "--- build done ---\n";
+            _ = std.c.write(1, marker.ptr, marker.len);
         }
         const exit_code = sx.target.runJITFromObject(obj_buf) catch {
             // JIT failed — fall back to AOT