A common source of defects in manufacturing miniature Printed Circuits Boards (PCB) is the attachment of silicon die or other wire bondable components on a Liq- uid Crystal Polymer (LCP) substrate. Typically, a conductive glue is dispensed prior to attachment with defects caused either by insufficient or excessive glue. The current prac- tice in electronics industry is to examine the deposited glue by a human operator a process that is both time consuming and inefficient especially in preproduction runs where the error rate is high. In this paper we propose a system that automates fault diagnosis by accurately estimating the vol- ume of glue deposits before and even after die attachment. To this end a modular scanning system is deployed that produces high resolution point clouds whereas the actual estimation of glue volume is performed by (R)egression- Net (RNet), a 3D Convolutional Neural Network (3DCNN). RNet outperforms other deep architectures and is able to estimate the volume either directly from the point cloud of a glue deposit or more interestingly after die attachment when only a small part of glue is visible around each die. The entire methodology is evaluated under operational conditions where the proposed system achieves accurate results without delaying the manufacturing process.