For several years now, Europe has been struggling with the migrant crisis. The number of migrants dramatically increased after the outbreak of civil war in Syria. The migration crisis revealed the imperfection and inadequacy of the asylum system in the European Union. The problems with regards to the human rights and freedoms have for years been the subject interest of both the international asylum system and internal systems of EU Member States. Legal standards governing the issues are extraordinarily complex. The article analyses the legislation and rulings regulating the issues of protecting the rights of foreigners applying for international protection. At the end proposals for legislative improvements de lege ferenda were specified.