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We did not do a double-hop. Earlier in the year we had upgraded to the necessary service packs to position us for upgrading to 9r1. We ran our Suite Integration at the very end of the process - after migrating Buyer, ACM, and Sourcing. Suite Integration is a long task - ours ran for 20 hours.
You should be fine running suite integration when both upstream/downstream are on 9r1. It is very common to run into data issues when running suite integration (especially on a double hop) and you would normally fix them in the Inspector. You can also plugin in the Weblogic port number (in the InternalURL param) in your AppInfo to improve suite integration performance.
You mentioned "You can also plugin in the Weblogic port number (in the InternalURL param) in your AppInfo to improve suite integration performance."
May we know how the "InternalURL" and Port numbers are used ? Must this value be the same as "IncomingHTTPServerURL" and Port no ?
Thought I would respond to my own question now that we have completed our upgrade.
We ended up waiting until both upstream and downstream applications were upgraded to 9R1 before performing the Suite Integration. This was the only way to complete the upgrade and associated data migrations we had to execute in the week of downtime we had to perform the tasks.