Mechanically strong separators with good electrolyte wettability and low-shrinkage properties are desirable for highly efficient and safe lithium batteries. In this study, multifunctional nanofiber membranes are fabricated by electrospinning a homogeneous solution containing amphiphilic poly(ethylene glycol)diacrylate-grafted siloxane and polyacrylonitrile. After the chemical cross-linking of siloxane, the prepared nanofiber membranes are found to exhibit good mechanical properties, high thermostability, and superior electrolyte-philicity with aqueous and nonaqueous electrolytes. Li-metal cells with the fabricated membrane separator exhibit high cycling stability (Coulombic efficiency of 99.8% after 1000 cycles). Moreover, improved cycling stability of Li-sulfur batteries can be achieved using these membrane separators. These membrane separators can be further used in flexible aqueous lithium-ion batteries and exhibit steady electrochemistry performance. This work opens up a potential route for designing multifunctional universal separators for rechargeable batteries.