If you want to have healpy plots in matplotlib subplots, the following would be the way to go. The key is to use plt.axes() to select the active subplot and to use the hold=True keyword in the healpy functions.
import healpy as hp
import numpy as np
import matplotlib.pyplot as plt
fig, (ax1, ax2) = plt.subplots(ncols=2)
plt.axes(ax1)
hp.mollview(np.random.random(hp.nside2npix(32)), hold=True)
plt.axes(ax2)
hp.mollview(np.arange(hp.nside2npix(32)), hold=True)
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