Bark beetles are serious forest pests in Slovakia. Their outbreaks may have significant ecological and economic impacts on spruce forests. There is a variety of natural enemies that activate themselves during population outbreaks of insects and entomopathogenic fungi belong to important antagonists with a potential to regulate populations of their hosts. In 2014–2016, species richness and prevalence of entomopathogenic fungi were evaluated during the bark beetle outbreaks in spruce forests affected by windstorms in the Tatra National Park in Slovakia. Three Beauveria species, B. bassiana, B. caledonica and B. pseudobassiana, with Metapochonia bulbillosa were identified from 271 specimens of three bark beetle species, Ips typographus, Ips amitinus and Pityogenes chalcographus. Beauveria bassiana was the dominant pathogen and infected all three bark beetle species. Phylogenetic analysis identified three phylogenetic groups of B. bassiana in the evaluated host populations. M. bulbillosa was reported for the first time from bark beetle hosts and Slovakia. The prevalence of fungal infection in natural populations of I. typographus was low, varied between 0.07 and 0.72%, and have little influence on the bark beetle abundance.