Large scale of Cross-Strait economic exchange has been conducting in two major backgrounds: Globalization and long-term Cross-Strait confrontation. On the one hand, the market force of globalization is a strong driving force to accelerate Cross-Strait economic exchange; on the other hand, long-term Cross-Strait political confrontation creates extremely strong national security concerns for Taiwan with respect to rapid Cross-Strait economic integration. This paper analyzes six major national security debates in Taiwan on Cross-Strait economic integration: national defense security, economic sanctions, economic inducements, economic war, transformation of national identity, and economic interdependent peace.