(tested with 6.0.0)
when deploying web.xml with the ext plugin, websphere will not read the applied changes.
the deployment process of ext plugin only modifies files in:
(this web.xml is merged with extensions form ext plugin)
but websphere seems not to read this web.xml ever again. it reads the previously copied xml files from:
but these files are not being modified by ext plugin.
also restarting of the portal webapp and/or the server instance doesnt help.
this probably affects all other xml files from web-inf also.