I would suggest using the AI Acquire Waveforms.vi instead of AI Acquire Waveform.vi (note the plurality of the names) multiple times. If you use AI Acquire Waveforms.vi, then you can acquire the waveforms simulataneously from multiple channels. You can also use the intermediate DAQ VIs to build such an application. Although they are a bit more robustious, they have the advantage of giving more control to the developer. LabVIEW ships with many examples which use these so you may want to reference those as you start to build your VI. Best of luck!
J.R. Allen