I have also posted this to support, but just wondering if anyone else was having the same problems.

Firstly, when I am editing a file, the IDE freezes for about 5 seconds and the following message is added to the log:

"FATAL", "Failed to get code completion list. PHP parser timed out.", "12:49:27", ""

Once this starts, it will continue any time the code is edited. The only solution is to save and close the current file and then reopen. It will then go away for an indeterminate amount of time before reappearing. There doesn't seem to be any pattern to when it might start again.

The second problem is when trying to use the CVS functionality. I have a working CVS account already set on a remote linux server. The paths to cvs.exe and ssh.exe are correctly configured. When I try to carry out any CVS activity, I get a fatal message box with the error message "ssh_askpass: exec(C:\Program Files\phped4\askpass.exe): No such file or directory" and the following is added to the log.

"CVS", "ssh_askpass: exec(C:\Program Files\phped4\askpass.exe): No such file or directory", "17:48:53", ""
"CVS", "Write failed: errno ESHUTDOWN triggered", "17:48:53", ""
"CVS", "cvs.exe [add aborted]: end of file from server (consult above messages if any)", "17:48:53", ""

I have checked and C:\Program Files\phped4\askpass.exe definitely does exist.

These might just be something I can solve myself with a bit twaeking, so if anyone can shine any light, it would be much appreciated.

Just to update, I did manage to solve the cvs issue.

Firstly I found that the version of ssh.exe, altough the cygwin version as recommended, was an outdated version.
I upgraded to the newest version.

The problem now was that I had never actually used ssh.exe to connect to the server, always putty, so my key wasn't retreived. The solution to this is to make a one-off connection to the server with the command ssh user@server.

All working well now.