  We investigate Majorana dark matter in a new variant of
$U(1)_{L_{\mu}-L_{\tau}}$ gauge extension of Standard Model, containing three
additional neutral fermions $N_{e}, N_{\mu}, N_{\tau}$, along with a
$(\bar{3},1,1/3)$ scalar Leptoquark (SLQ) and an inert doublet, to study the
phenomenology of dark matter, neutrino mass generation and flavour anomalies on
a single platform. The lightest mass eigenstate of the $N_{\mu}, N_{\tau}$
neutral fermions plays the role of dark matter. We compute the WIMP-nucleon
cross section in leptoquark portal and the relic density mediated by inert
doublet components, leptoquark and the new $Z^{\prime}$ boson. We constrain the
parameter space consistent with Planck limit on relic density, PICO-60 and LUX
bounds on spin-dependent direct detection cross section. We also discuss about
the neutrino mass generation at one-loop level and the viable parameter region
to explain current neutrino oscillation data. The $Z^\prime$ gauge boson of
extended $U(1)$ symmetry and the SLQ play an important role in settling the
known issues of flavor sector.
