The horizontal well drilling passes through different strata in Shahejie formation of Bohai 35 oilfield, sandstone-mudstone ratio is unstable in the whole horizontal section with lots of interbedding, which is easy to lead to wall instability, difficulty of sand control pipe running, many blind pipes setting and serious screen pipe blockage in production. By the use of while-drilling tools, timely tracking and adjustments of borehole trajectory, drilling fluid system, drilling technology and some other aspects, the oil reservoir encountering rate in severe heterogeneous reservoir of deep strata in middle Bohai Sea has been effectively improved. Some operation methods and experiences can be reference to the field construction of severe heterogeneous reservoir horizontal well in deep strata.