lighttpd with mod_magnet sub-site 404 page

Hello everyone.
I had run a wpmu site 2.9 on a vps with lighttpd with mod_magnet without any problems, then two days ago I managed to upgrade to the newest version 3.0.1 so I make a new installation for the test then I met problem.

After installation I enabled multisite feature, the main site (mysite.com) works smoothly under super cache, then I created a test sub-site (test.mysite.com), it seems the main page has no error, but when I visiting the category, pages,comments all return to a blank page with 404 error.

I think that is a rewrite problem, but I’v no idea to solve it, anyone can help?

centos 5.5
lighttpd: 1.4.26
and here is the content in my rewrite.lua

-- wpsupercache
function serve_html(cached_page)
  -- don't double stat here (see code below)
  lighty.env["physical.path"] = cached_page
  --print("Serving cached page: " .. cached_page) -- debug only
end

function serve_gzip(cached_page)
  if (lighty.stat(cached_page .. ".gz")) then
    lighty.header["Content-Encoding"] = "gzip"
    lighty.header["Content-Type"] = "text/html" -- should be text/html, look at wpsupercache-readme!!
    lighty.env["physical.path"] = cached_page .. ".gz"
    --print("Serving gzipped page: " .. cached_page .. ".gz") -- debug only
    return true
  else
    return false
  end
end

-- add trailing slash on admin
if (lighty.env["request.uri"] == "/wp-admin") then
    lighty.header["Location"] = "/wp-admin/"
    return 301
end

-- wpsupercache
-- index access stays uncought, as it is an existing path (aka index.php)
if (not lighty.stat(lighty.env["physical.path"]) or lighty.env["physical.rel-path"] == "/" ) then
  query_condition = not (lighty.env["uri.query"] and string.find(lighty.env["uri.query"], ".*s=.*"))
  user_cookie = lighty.request["Cookie"] or "no_cookie_here"
  cookie_condition = not (string.find(user_cookie, ".*comment_author.*") or string.find(user_cookie, ".*wordpress.*") or string.find(user_cookie, ".*wp-postpass_.*"))
  -- for some reason this condition was forgotten...
  method_condition = not (lighty.env["request.method"] == "POST")
  if (query_condition and cookie_condition and method_condition) then
    accept_encoding = lighty.request["Accept-Encoding"] or "no_acceptance"
    cached_page = lighty.env["physical.doc-root"] .. "/wp-content/cache/supercache/" .. lighty.request["Host"] .. lighty.env["request.uri"] .. "/index.html"
    cached_page = string.gsub(cached_page, "//", "/")
    if (lighty.stat(cached_page)) then
      if (string.find(accept_encoding, "gzip")) then
        if not serve_gzip(cached_page) then serve_html(cached_page) end
      else
        serve_html(cached_page)
      end
    end
  end
end

-- default wpmu-handling
if (not lighty.stat(lighty.env["physical.path"])) then
  if (lighty.env["request.uri"] == "/sitemap.xml") then
    lighty.env["physical.rel-path"] = "wp-includes/ms-files.php"
    lighty.env["uri.query"] = "file=sitemap.xml"
  elseif (lighty.env["request.uri"] == "/sitemap.xml.gz") then
    lighty.env["physical.rel-path"] = "wp-includes/ms-files.php"
    lighty.env["uri.query"] = "file=sitemap.xml.gz"
  elseif (lighty.env["request.uri"] == "/favicon.ico") then
    lighty.env["physical.rel-path"] = "wp-includes/ms-files.php"
    lighty.env["uri.query"] = "file=favicon.ico"
  elseif (string.match(lighty.env["uri.path"], "^(/?[^/]*/)files/$")) then
    lighty.env["physical.rel-path"] = "index.php"
  else
    n, a = string.match(lighty.env["uri.path"], "^(/?[^/]*/)files/(.+)")
    if a then
      lighty.env["physical.rel-path"] = "wp-includes/ms-files.php"
      lighty.env["uri.query"] = "file=" .. a
    else
      n, a = string.match(lighty.env["uri.path"], "^(/?[^/]*/)(wp-.*)")
      if a then
        lighty.env["physical.rel-path"] = a;
      else
        n, a = string.match(lighty.env["uri.path"], "^(/?[^/]*/)(.*\.php)$")
        if a then
          lighty.env["physical.rel-path"] = a
        else
          lighty.env["physical.rel-path"] = "index.php"
        end
      end
    end
  end
  lighty.env["physical.path"] = lighty.env["physical.doc-root"] .. lighty.env["physical.rel-path"]
end