Desktop Flow works locally but not on the Cloud Un...

I have a Desktop Flow that I runs successfully locally, however, when I run the flow from the cloud unattended it does not work properly. The Desktop Flow calls three macros within a single excel workbook through three separate instances and has 5 minute waits in between to allow the workbook to finish processing. While this works when run locally not through the cloud, when I call the flow from the cloud unattended, it runs a the second macro twice and will not complete successfully. Has anyone else experienced flows having different results when called locally on the desktop vs the cloud? If so, how did you go about solving the issue besides increasing wait times?