Context : A possible pathway for understanding the events and the mechanisms involved in galaxy formation and evolution is an in-depth comprehension of the galactic and inter-galactic fossil sub-structures with long dynamical times-scales : stars in the field and in stellar clusters .

Aims : This paper continues the series of the Fornax Deep Survey ( FDS ) .
Following the previous studies dedicated to extended Fornax cluster members , in this paper we present the catalogs of compact stellar systems in the Fornax cluster as well as extended background sources and point-like sources .

Methods : We derive ugri photometry of \sim 1.7 million sources over the \sim 21 square degree area of FDS centered on the bright central galaxy NGC 1399 .
For a wider area , of \sim 27 square degrees extending in the direction of NGC 1316 , we provide gri photometry for \sim 3.1 million sources .
To improve the morphological characterization of sources we generate multi-band image stacks by coadding the best seeing gri -band single exposures with a cut at FWHM \leq 0 \aas@@fstack { \prime \prime } 9 .
We use the multi-band stacks as master detection frames , with a FWHM improved by \sim 15 \% and a FWHM variability from field to field reduced by a factor of \sim 2.5 compared to the pass-band with best FWHM , namely the r -band .
The identification of compact sources , in particular of globular clusters ( GC ) , is obtained from a combination of photometric ( e.g .
colors , magnitudes ) and morphometric ( e.g .
concentration index , elongation , effective radius ) selection criteria , by also taking as reference the properties of sources with well-defined classification from spectroscopic or high-resolution imaging data .

Results : Using the FDS catalogs , we present a preliminary analysis of globular cluster ( GC ) distributions in the Fornax area .
The study confirms and extends further previous results which were limited to a smaller survey area .
We observe the inter-galactic population of GCs , a population of mainly blue GCs centered on NGC 1399 , extends over \sim 0.9 Mpc , with an ellipticity \epsilon \sim 0.65 and a small tilt in the direction of NGC 1336 .
Several sub-structures extend over \sim 0.5 ~ { } Mpc along various directions .
Two of these structures do not cross any bright galaxy ; one of them appears to be connected to NGC 1404 , a bright galaxy close to the cluster core and particularly poor of GCs .
Using the gri catalogs we analyze the GC distribution over the extended FDS area , and do not find any obvious GC sub-structure bridging the two brightest cluster galaxies , NGC 1316 and NGC 1399 .
Although NGC 1316 is more than twice brighter of NGC 1399 in optical bands , using gri data , we estimate a factor of \sim 3 - 4 richer GC population around NGC 1399 compared to NGC 1316 , out to galactocentric distances of \sim 40 \arcmin or \sim 230 kpc .

Conclusions : The ugri and gri catalogs we present are made public via the FDS project web pages , and through the virtual observatory .
Further studies , based on the catalogs , are in progress .