Well it's a pretty common theme in Traveller, however I prefer games down at the character level, such that the PCs are in the middle of things in their games not just saying "do this, do that" and so on, where their actions don't matter.
My GENEM / Zhodani clash was going to revolve around them (GENEM) being set already in the sector and Zhodani coming in a cramping their style. The initial scenario finds the Zhodani PCs on a planet helping conduct a planetary survey for Chiadle a Zhodani mega-corp. The planet is being purchased by a neutral world who asked for the Zho's help. The zho's are just checking for radiation, water purity, resource checking (double checking the last survey) to make sure that everything is correct. During the survey (the system is supposed to be interdicted) a 10-ton launch shows up and requests to talk to the Zhodani. He'd been left at the gas giant a few days ago by a ship jumping in then out, and thrusted in.
He's looking to sell the Zhodani some information. They clear him to land and find out he wants to sell them a Zhodani Messenger Stone, imprinted with telepathic information. Then find the stone was recovered off a wreck in a system J-2 away. Analyzing the stone finds the original ship in a battle after restocking a secret Zho base, so they ask the man to take them to the ship. After recovering the bodies (it was a small scout ship) the Zhodani are able to find the secret base from the scout ship's nav computer. This leads to the secret base, that has been wiped out !
Eventually they get back to the subsector HQ (their Chiadle membership is actually a cover they work for the Consulate) and are given rather cryptic orders to "handle things appropriately". A further meet with a Zho Commando Officer pushes them further, leaving them a pair of satchel charges, once they determine the ship that lead both attacks. The PCs would have a teleporter amongst them.
The final scenario would lead to the team finding the 400-ton merchant, responsible for both attacks, owned by GENEM and their cybernetic troops, refueling at some neutral point...
The rest is up to the pcs.
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