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Please describe the situation more specifically. What map are you playing on? Is it possible to avoid a late-game scenario? Generally, with the right spells and Necropolis upgrades, Necromancers can overcome any challenge, or why not?
If a late game is unavoidable, please provide information about the armies and levels.
In general, Necropolis is a terrible race to play against; just try playing on maps with powerful neutral creatures, for example, on standard templates (or download maps by Moz).