When linking to an organization, if you switch between transactions of the same constituent record the organization you just linked unlinks and no longer shows in the linked column.
Our Product Development team has reviewed this issue and its impact on the software. After careful consideration, we have determined that we will not be addressing this issue. As an alternative, the transaction should be linked, and then immediately Single Processed. You can also place gifts into the same batch if needed.
Steps to Duplicate
Send 2 transactions through with the same Constituent on behalf of an organization
Go to the NetCommunity Plugin > Link the organization for one record
Switch to the other transaction and Link the organization to another organization that's different from the first transaction
When you switch to the 1st and then back to the 2nd, the 2nd transaction has now reverted back to what the first transaction was linked too.