You can take WAS 6.40 ,deploy WD app on it, define this WAS 6.40 server on your EP6 SP2 SLD and then make an WD iView in you portal which will consume WD application from WAS 6.40. This means that all "buisness logic" would be performed on WAS 6.40 and you portal will only "view" the application. However you can use portal APIs (like Client Side Eventing) in this scenario.
On the other side you don't have a WD runtime on WAS 6.20, so you can't deploy WD application on WAS 6.20
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