Groundwater flow in an aquifer has frequently been found to be non-Darcian by performing in situ tests. A novel analytic model is proposed in this study for describing the unsteady non-Darcian flow in a confined aquifer by taking advantage of the observed flow rate and injection pressure during the constant head packer test. A linearization approximation of the Izbash equation is used to approximate the nonlinear term in the governing equation. This analytic model is applied to describe the non-Darcian flow in the interlayer staggered zone at the Baihetan hydropower station, China. The test results inversed by the genetic algorithm show that non-Darcian flow happened during the test under the injection pressure 0.3 MPa with the power index
n
is 1.278, non-Darcian hydraulic conductivity
k
1
is
1.613
×
10
−
5
cm/s and the specific storage
S
s
is
9.757
×
10
−
5
m-1, respectively. The sensitivity analysis indicated that when the power index
n
or the specific storage
S
s
is larger, and the hydraulic head will increase more slowly and needs longer to stabilize, but the non-Darcian hydraulic conductivity
k
1
shows the opposite trend. Moreover, the hydraulic head is more sensitive to the power index
n
compared to other parameters at late times. The findings of this study reveal the non-Darcian flow during the constant head packer test and provide a simple and fast way to estimate parameters for more accurate seepage field simulation.