Nuclear star clusters (NSCs) are found in at least 70% of all galaxies, but their formation path is still unclear. In the most common scenarios, NSCs form in-situ from the galaxys central gas reservoir, through merging of globular clusters (GCs), or through a combination of the two. As the scenarios pose different expectations for angular momentum and stellar population properties of the NSC in comparison to the host galaxy and the GC system, it is necessary to characterise the stellar light, NSC and GCs simultaneously. The large NSC (r$_rm{eff} = 66$ pc) and rich GC system of the early-type Fornax cluster galaxy FCC47 (NGC1336) render this galaxy an ideal laboratory to constrain NSC formation. Using MUSE science verification data assisted by adaptive optics, we obtained maps for the stellar kinematics and for stellar-population properties of FCC47. We extracted the spectra of the central NSC and determined line-of-sight velocities of 24 GCs and metallicities of five. FCC47 shows two decoupled components (KDCs): a rotating disk and the NSC. Our orbit-based dynamical Schwarzschild model revealed that the NSC is a distinct kinematic feature and it constitutes the peak of metallicity and old ages in the galaxy. The main body consists of two counter-rotating populations and is dominated by a more metal-poor population. The GC system is bimodal with a dominant metal-poor population and the total GC system mass is $sim 17%$ of the NSC mass ($sim$ 7 $times$ $10^8 M_odot$). The rotation, high metallicity and high mass of the NSC cannot be uniquely explained by GC-inspiral and most likely requires additional, but quickly quenched, in-situ formation. The presence of two KDCs most probably are evidence of a major merger that has altered the structure of FCC47 significantly, indicating the important role of galaxy mergers in forming the complex kinematics in the galaxy-NSC system.