Preventing Bootstrap button from filling flexbox

To you button class, add mx-auto to center the button and mt-auto to push the button at the bottom of the card.

<!DOCTYPE html>
<html lang="en">

<head>
  <title>Bootstrap Example</title>
  <meta charset="utf-8">
  <meta name="viewport" content="width=device-width, initial-scale=1">
  <link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/4.1.0/css/bootstrap.min.css">
  <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.3.1/jquery.min.js"></script>
  <script src="https://cdnjs.cloudflare.com/ajax/libs/popper.js/1.14.0/umd/popper.min.js"></script>
  <script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.1.0/js/bootstrap.min.js"></script>
</head>

<body>
  <div class="container">
    <div class="row pt-4" id="cards">
      <div class="card-deck">
        <div class="card">
          <img class="card-img-top img-fluid" src="{{url_for('static', filename='volunteer.png')}}" alt="exercise_image">
          <div class="card-body d-flex flex-column align-items-center">
            <h5 class="card-title">Giving Back</h5>
            <p class="card-text">Help others and feel useful</p>
              <a href="#" class="btn btn-primary mt-auto mx-auto">Set a Goal</a>
          </div>
        </div>
      </div>
    </div>
  </div>
</body>

</html>

Just wrap your anchor in another div

<div>
    <a href="#" class="btn btn-primary mt-auto">Set a Goal</a>
</div>

<!DOCTYPE html>
<html lang="en">

<head>
  <title>Bootstrap Example</title>
  <meta charset="utf-8">
  <meta name="viewport" content="width=device-width, initial-scale=1">
  <link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/4.1.0/css/bootstrap.min.css">
  <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.3.1/jquery.min.js"></script>
  <script src="https://cdnjs.cloudflare.com/ajax/libs/popper.js/1.14.0/umd/popper.min.js"></script>
  <script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.1.0/js/bootstrap.min.js"></script>
</head>

<body>
  <div class="container">
    <div class="row pt-4" id="cards">
      <div class="card-deck">
        <div class="card">
          <img class="card-img-top img-fluid" src="{{url_for('static', filename='volunteer.png')}}" alt="exercise_image">
          <div class="card-body d-flex flex-column">
            <h5 class="card-title">Giving Back</h5>
            <p class="card-text">Help others and feel useful</p>
            <div>
              <a href="#" class="btn btn-primary mt-auto">Set a Goal</a>
            </div>
          </div>
        </div>
      </div>
    </div>
  </div>
</body>

</html>

OR Just add align-items-center class on the flex div

<!DOCTYPE html>
<html lang="en">

<head>
  <title>Bootstrap Example</title>
  <meta charset="utf-8">
  <meta name="viewport" content="width=device-width, initial-scale=1">
  <link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/4.1.0/css/bootstrap.min.css">
  <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.3.1/jquery.min.js"></script>
  <script src="https://cdnjs.cloudflare.com/ajax/libs/popper.js/1.14.0/umd/popper.min.js"></script>
  <script src="https://maxcdn.bootstrapcdn.com/bootstrap/4.1.0/js/bootstrap.min.js"></script>
</head>

<body>
  <div class="container">
    <div class="row pt-4" id="cards">
      <div class="card-deck">
        <div class="card">
          <img class="card-img-top img-fluid" src="{{url_for('static', filename='volunteer.png')}}" alt="exercise_image">
          <div class="card-body d-flex flex-column align-items-center">
            <h5 class="card-title">Giving Back</h5>
            <p class="card-text">Help others and feel useful</p>
              <a href="#" class="btn btn-primary mt-auto">Set a Goal</a>
          </div>
        </div>
      </div>
    </div>
  </div>
</body>

</html>