This milestone has been accomplished. Particle-in-cell simulations have clarified the effects on the beam that arise from localized regions of incomplete neutralization along the beam path. The beam focal spot size increases and the peak intensity on target decreases when such regions are present. The results clarify the influence of regions where additional plasma sources would improve the beam focusing. The advantage of additional plasma sources has been demonstrated by comparing results obtained with and without plasma in regions where it is presently absent or under-dense. We have found that, in particular, directly introducing plasma into the region immediately upstream of the finalfocusing solenoid, and at larger radii within that solenoid, would be beneficial. The implications of this work for the NDCX experiments are discussed.