I have said this earlier: DO NOT USE PROTECTORATES IN EB! It is beacuse the protectorate gives you all its surplus money. But with EB money assistance script, it gets immediately a significant money assistance which is in turn transfered to you again, and again, and again... Basically, having a protectorate in EB means a huge exploit just giving you an incredible ammount of cash each turn, which is neither realistic nor fun.
As a workaround I would recommend to use force diplomacy to obtain an equivalent of protectorate, i.e.: alliance, trade rights, military acces (and, optionally, even some reasonable tribute). It gives you all the benefits without that money cheat.

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