We investigate preheating in a higher-dimensional generalized Kaluza-Klein theory with a quadratic inflaton potential V(φ) = ½m²φ² including metric perturbations explicitly. The system we consider is the multi-field model where there exists a dilaton field σ which corresponds to the scale of compactifications and another scalar field χ coupled to inflaton with the interaction ½g²φ²χ²+g̃²φ³χ. In the case of g̃ = 0, we find that the perturbation of dilaton does not undergo parametric amplification while the χ field fluctuation can be enhanced in the usual manner by parametric resonance. In the presence of the g̃²φ³χ coupling, the dilaton fluctuation in sub-Hubble scales is modestly amplified by the growth of metric perturbations for the large coupling g̃. In super-Hubble scales, the enhancement of the dilaton fluctuation as well as metric perturbations is weak, taking into account the backreaction effect of created χ particles. We argue that not only is it possible to predict the ordinary inflationary spectrum in large scales but extra dimensions can be held static during preheating in our scenario.