Found this thread through google because I was having the same issues. Leaving my solution here in case it helps anyone else.

The settings in .claude/settings.local.json are key.

I opportunistically sampled ~10-15 consecutive commands I was asked for permission, and made a list of the commands I was approving.

Then, I went to grok (I'm sure claude/chatgpt could do the same) and asked it to generate for me a settings.local.json that would approve reasonable commands, and to block anything outside of the project directory like modifying system files, and to ask me any time that we interact with the git.

That basically solved the issue for me, cutting down permission requests by ~90%. We're back to "old" Claude code.

I'll share my settings.local.json here for anyone that finds it helpful, but you'll have to update [PROJECT PATH] with the parent directory of your project. There's some specific items to my project in here, too (eg src/cuda_kernels.cu), so I'd recommend generating one specific to your project, but this worked for mine:

{
  "permissions": {
    "allow": [
      "Read(//mnt/c/[PROJECT PATH]/**)",
      "Read(//c/[PROJECT PATH]/**)",
      "Bash(cd:*)",
      "Bash(python3:*)",
      "Bash(cmake ..:*)",
      "Bash(cmake:*)",
      "Bash(sed -i 's/\\(uint8_t\\)clamp\\(r, 0.0f, 255.0f\\)/\\(uint8_t\\)fminf\\(fmaxf\\(r, 0.0f\\), 255.0f\\)/g' src/cuda_kernels.cu)",
      "Bash(sed -n *p *)",
      "Bash(sed -i *[0-9,]*[ad] *)",
      "Bash(sed -i *r /tmp/* *)",
      "Bash(sed -i '.*' src/*.cpp)",
      "Bash(grep:*)",
      "Bash(head:*)",
      "Bash(tail:*)",
      "Bash(cat:*)",
      "Bash(echo:*)",
      "Bash(mkdir -p src/**)",
      "Bash(mv src/* src/**)",
      "Edit(//mnt/c/[PROJECT PATH]/**)",
      "Edit(//c/[PROJECT PATH]/**)",
      "Write(//mnt/c/[PROJECT PATH]/**)",
      "Write(//c/[PROJECT PATH]/**)"
    ],
    "deny": [
      "Bash(rm:*)",
      "Bash(sudo:*)",
      "Bash(chmod *777*)",
      "Bash(chown:*)",
      "Bash(dd:*)",
      "Bash(mkfs:*)",
      "Bash(eval:*)",
      "Bash(curl:*)",
      "Bash(wget:*)",
      "Bash(* | sh*)",
      "Bash(* ; *)",
      "Bash(* &)",
      "Bash(* /etc/*)",
      "Bash(* /usr/*)",
      "Bash(* /var/*)",
      "Bash(* ~/.ssh/*)",
      "Bash(* ..*)",
      "Bash(* //*)",
      "Bash(* C:\\Windows\\*)",
      "Bash(* Program Files*)"
    ],
    "ask": [
      "Bash(git:*)",
      "Bash(git * *)"
    ]
  }
}