The invention discloses a morel indoor cultivation method and a greenhouse thereof. The method includes the following steps: (1) cultivation material is prepared; (2) filling is carried out, namely equivoluminal cultivation material and soil are filled in a disinfected bag or tank; (3) disinfection is carried out; (4) inoculation is carried out, namely agar containing morel is placed on the soil layer in the step (2), and sclerotium is inoculated; (5) sclerotium growth is carried out in dark place, and temperature and relative air humidity are maintained; (6) culture medium is prepared, namely the sclerotium is uniformly intercalated into two soil layers with the thickness of 1-3cm, and indoor temperature and relative air humidity are maintained; (7) watering is carried out on the culture medium until the culture medium is completely permeated by water; (8) uniform ventilation is carried out, (9) morel is matured, namely the humidity of the culture medium is maintained, and meanwhile the indoor temperature and relative air humidity are maintained until the morel is matured. By adopting the method, indoor cultivation of morel having high nutrition value can be realized, mass production can be carried out, and yield is high.