diff --git a/aider/io.py b/aider/io.py
index 92462f1dd..d826d0977 100644
--- a/aider/io.py
+++ b/aider/io.py
@@ -300,9 +300,7 @@ class InputOutput:
             res = prompt(question + " ", default=default)
 
         hist = f"{question.strip()} {res.strip()}"
-        self.append_chat_history(hist, linebreak=True, blockquote=True)
-        if self.yes in (True, False):
-            self.tool_output(hist)
+        self.tool_output(hist)
 
         if not res or not res.strip():
             return
diff --git a/aider/linter.py b/aider/linter.py
index f2afe2d05..57d225fcf 100644
--- a/aider/linter.py
+++ b/aider/linter.py
@@ -98,7 +98,7 @@ class Linter:
         compile_res = lint_python_compile(fname, code)
 
         fatal = "E9,F821,F823,F831,F406,F407,F701,F702,F704,F706"
-        flake8 = f"flake8 --select={fatal} --show-source"
+        flake8 = f"flake8 --select={fatal} --show-source --isolated"
 
         try:
             flake_res = self.run_cmd(flake8, rel_fname, code)